Curved mineral platelets in bone.

Bone is a composite material principally made up of a mineral phase (apatite) and collagen fibrils. The mineral component of bone occurs in the form of polycrystalline platelets 2-6 nm in thickness. These platelets are packed and probably glued together in stacks of two or more, ranging up to >30 platelets. Here we show that most of these stacks are curved flat sheets whose cylindrical axes are oriented parallel to the long axes of collagen fibrils. Consequently, the curvature of the platelets is not detectable in TEM sections cut parallel to the collagen fibril axes. The radius of curvature around these axes ranges from about 25 nm (the average radius of the collagen fibrils) to 100's of nm. The shapes of these curved forms contribute to the compressive strength of bone. STATEMENT OF SIGNIFICANCE: Bone, the material of which bones are made, is mainly composed of a protein, collagen, and the mineral apatite (calcium phosphate). The crystals have long been known to be flat plates about 5 nanometers (nm) thick. Here we show that the crystals are bound together in curved platelets with a radius of curvature between 25 and several hundred nm, which weave between fibrils of collagen. Some platelets wrap tightly around fibrils. The platelets form stacks of from two to up to 30. The crystals in the platelets are all oriented parallel to the cylindrical fibrils even though most crystals are not in contact with collagen. These curved structures provide greater strength to bone.

Different reference genomes determine different results: Comparing SNP calling in RAD-seq of Engelhardia roxburghiana using different reference genomes.

Advances in next-generation sequencing (NGS) have significantly reduced the cost and improved the efficiency of obtaining single nucleotide polymorphism (SNP) markers, particularly through restriction site-associated DNA sequencing (RAD-seq). Meanwhile, the progression in whole genome sequencing has led to the utilization of an increasing number of reference genomes in SNP calling processes. This study utilized RAD-seq data from 242 individuals of Engelhardia roxburghiana, a tropical tree of the walnut family (Juglandaceae), with SNP calling conducted using the STACKS pipeline. We aimed to compare both reference-based approaches, namely, employing a closely related species as the reference genome versus the species itself as the reference genome, to evaluate their respective merits and limitations. Our findings indicate a substantial discrepancy in the number of obtained SNPs between using a closely related species as opposed to the species itself as reference genomes, the former yielded approximately an order of magnitude fewer SNPs compared to the latter. While the missing rate of individuals and sites of the final SNPs obtained in the two scenarios showed no significant difference. The results showed that using the reference genome of the species itself tends to be prioritized in RAD-seq studies. However, if this is unavailable, considering closely related genomes is feasible due to their wide applicability and low missing rate as alternatives. This study contributes to enrich the understanding of the impact of SNP acquisition when utilizing different reference genomes.

An analytical performance approach for RCS/RS with one robot serving multiple stack heights under a one-path relocation strategy.

Robotic compact storage and retrieval systems (RCS/RS) represent a modern and useful storage system since the number of installed systems is growing fast. The modularity and demand-based scalability are reasons, therefore. Nonetheless, there are hardly any statements on the performance of those warehouses. This paper presents an analytical calculation approach to determine the performance of an RCS/RS with one operating robot serving different grid sizes and a varying number of stacked containers. The robot's cycle time is calculated by assuming a uniform distribution of container stacks and a probabilistic storage height. A discrete-event simulation model of an RCS/RS is built to verify and validate the analytical approximations. The system's basic structure and the input parameters originate from a European material handling provider. After the verification and validation, an extensive parameter variation is done with the target of displaying a wide range of usage. This analytical approach, which is easy and fast solvable with standard calculation programs, represents an easy and fast tool to predict the performance of one robot operating in an RCS/RS for any system configuration.

Adaptive Machining Method for Helical Milling of Carbon Fiber-Reinforced Plastic/Titanium Alloy Stacks Based on Interface Identification.

CFRP/Ti stacks composed of carbon fiber-reinforced plastic composites (CFRP) and titanium alloys (Ti) are widely used in aerospace fields. However, in the integrated hole-making process of CFRP/Ti stacks, the machining characteristics of various materials are significantly different, and constant machining parameters cannot simultaneously meet the high-quality machining requirements of two materials. In addition, errors exist between the actual thickness of each material layer and the theoretical value, which causes an impediment to the monitoring of the machining interface and the corresponding adjustment of parameters. An adaptive machining method for the helical milling of CFRP/Ti stacks based on interface identification is proposed in this paper. The machining characteristics of the pneumatic spindle and the interface state in the helical milling of CFRP/Ti stacks are analyzed using self-developed portable helical milling equipment, and a new algorithm for the real-time monitoring of the machining interface position and adaptive adjustment of the machining parameters according to the interface identification result is proposed. Helical milling experiments were carried out, the results show that the proposed method can effectively identify the position of the machining interface with good identification accuracy. Moreover, the proposed parameter-adaptive optimized machining method for CFRP/Ti stacks can significantly improve hole diameter accuracy and machining quality.

An Atlas of the base inter-RNA stacks involved in bacterial translation.

Nucleobase-specific noncovalent interactions play a crucial role in translation. Herein, we provide a comprehensive analysis of the stacks between different RNA components in the crystal structures of the bacterial ribosome caught at different translation stages. Analysis of tRNA||rRNA stacks reveals distinct behaviour; both the A-and E-site tRNAs exhibit unique stacking patterns with 23S rRNA bases, while P-site tRNAs stack with 16S rRNA bases. Furthermore, E-site stacks exhibit diverse face orientations and ring topologies-rare for inter-chain RNA interactions-with higher average interaction energies than A or P-site stacks. This suggests that stacking may be essential for stabilizing tRNA progression through the E-site. Additionally, mRNA||rRNA stacks reveal other geometries, which depend on the tRNA binding site, whereas 16S rRNA||23S rRNA stacks highlight the importance of specific bases in maintaining the integrity of the translational complex by linking the two rRNAs. Furthermore, tRNA||mRNA stacks exhibit distinct geometries and energetics at the E-site, indicating their significance during tRNA translocation and elimination. Overall, both A and E-sites display a more diverse distribution of inter-RNA stacks compared to the P-site. Stacking interactions in the active ribosome are not simply accidental byproducts of biochemistry but are likely invoked to compensate and support the integrity and dynamics of translation.

The Impact of Ambient Temperature on Electrothermal Characteristics in Stacked Nanosheet Transistors with Multiple Lateral Stacks.

With characteristic size scaling down to the nanoscale range, the confined geometry exacerbates the self-heating effect (SHE) in nanoscale devices. In this paper, the impact of ambient temperature (Tamb) on the SHE in stacked nanosheet transistors is investigated. As the number of lateral stacks (Nstack) increases, the nanoscale devices show more severe thermal crosstalk issues, and the current performance between n- and p-type nanoscale transistors exhibits different degradation trends. To compare the effect of different Tamb ranges, the temperature coefficients of current per stack and threshold voltage are analyzed. As the Nstack increases from 4 to 32, it is verified that the zero-temperature coefficient bias point (VZTC) decreases significantly in p-type nanoscale devices when Tamb is above room temperature. This can be explained by the enhanced thermal crosstalk. Then, the gate length-dependent electrothermal characteristics with different Nstacks are investigated at various Tambs. To explore the origin of drain current variation, the temperature-dependent backscattering model is utilized to explain the variation. At last, the simulation results verify the impact of Tamb on the SHE. The study provides an effective design guide for stacked nanosheet transistors when considering multiple stacks in circuit applications.

Optical Measurement of the Stoichiometry of Thin-Film Compounds Synthetized From Multilayers: Example of Cu(In,Ga)Se2.

The properties of centimeter-sized thin-film compound semiconductors depend upon the morphology and chemical composition of the multiple submicrometer-thick elemental and alloy precursor layers from which they are synthesized. The challenge is to characterize the individual precursor layers over these length scales during a multistep synthesis without altering or contaminating them. Conventional electron and X-ray-based morphological and compositional techniques are invasive, require preparation, and are thus incompatible with in-line synthesis processes. In a proof-of-concept study, we applied confocal laser scanning microscopy (CLSM) as a noninvasive optical imaging technique, which measures three-dimensional surface profiles with nanoscale resolution, to this challenge. Using an array of microdots containing Cu(In,Ga)Se2 semiconductor layers for solar cells as an example, we performed CLSM correlative studies to quantify morphological and layer thickness changes during four stages of a thin-film compound synthesis. Using simple assumptions, we measured the micrometer-scale spatially resolved chemical composition of stacked precursor layers to predict the final material phases formed and predict relative device performance. The high spatial resolution, coupled with the ability to measure sizeable areas without influencing the synthesis at high speed, makes CLSM an excellent prospect for research and quality control tool for thin films.

Challenges to Optimize Charge Trapping Non-Volatile Flash Memory Cells: A Case Study of HfO2/Al2O3 Nanolaminated Stacks.

The requirements for ever-increasing volumes of data storage have urged intensive studies to find feasible means to satisfy them. In the long run, new device concepts and technologies that overcome the limitations of traditional CMOS-based memory cells will be needed and adopted. In the meantime, there are still innovations within the current CMOS technology, which could be implemented to improve the data storage ability of memory cells-e.g., replacement of the current dominant floating gate non-volatile memory (NVM) by a charge trapping memory. The latter offers better operation characteristics, e.g., improved retention and endurance, lower power consumption, higher program/erase (P/E) speed and allows vertical stacking. This work provides an overview of our systematic studies of charge-trapping memory cells with a HfO2/Al2O3-based charge-trapping layer prepared by atomic layer deposition (ALD). The possibility to tailor density, energy, and spatial distributions of charge storage traps by the introduction of Al in HfO2 is demonstrated. The impact of the charge trapping layer composition, annealing process, material and thickness of tunneling oxide on the memory windows, and retention and endurance characteristics of the structures are considered. Challenges to optimizing the composition and technology of charge-trapping memory cells toward meeting the requirements for high density of trapped charge and reliable storage with a negligible loss of charges in the CTF memory cell are discussed. We also outline the perspectives and opportunities for further research and innovations enabled by charge-trapping HfO2/Al2O3-based stacks.

Numerical Study of Step Drill Structure on Machining Damage in Drilling of CFRP/Ti Stacks.

The tool structure is an important factor affecting the damage of CFRP/Ti stacks machining. However, the impact of tool structure on the formation process of stacks hole damage cannot be fully revealed through experimental methods alone. In contrast, finite element simulation can effectively overcome the limitations of experiments. In this study, a numerical simulation model is established to investigate the relationship between step drill structure and formation process of CFRP/Ti stacks hole damage. Based on this, the research discusses the effect of step drill structure on the burr height of Ti layer, delamination of CFRP, aperture deviation, defects in hole surface. The results show that when the stacking sequence is CFRP to Ti, the burr height of Ti at hole exit decreases first and then increases with the rising of the ratio of primary drill bit diameter to secondary drill bit diameter (kd). When kd is 0.6, the burr height of Ti at hole exit is the lower. As kd increasing from 0.4 to 1.0, delamination factor of CFRP increases by 2.57%, which are affected little by the step drill structure due to the support of Ti. Besides, the aperture size deviation decreases first then increases with the rising of kd, and the minimum aperture size deviation is 2.09 µm when kd is 0.6. In addition, as kd is 0.6, the hole wall defect is fewer. In conclusion, step drill with kd of 0.6 is suitable for drilling of CFRP/Ti stacks.

Pseudocapacitive Properties of Isostructural Oxides Sr2 LaBMnO7 (B=Co, Fe).

Pseudocapacitors promise to fill the gap between traditional capacitors and batteries by delivering reasonable energy densities and power densities. In this work, pseudocapacitive charge storage properties are demonstrated for two isostructural oxides, Sr2 LaFeMnO7 and Sr2 LaCoMnO7 . These materials comprise spatially separated bilayer stacks of corner sharing BO6 units (B=Fe, Co or Mn). The spaces between stacks accommodate the lanthanum and strontium ions, and the remaining empty spaces are available for oxide ion intercalation, leading to pseudocapacitive charge storage. Iodometric titrations indicate that these materials do not have oxygen-vacancies. Therefore, the oxide ion intercalation becomes possible due to their structural features and the availability of interstitial sites between the octahedral stacks. Electrochemical studies reveal that both materials show promising energy density and power density values. Further experiments through fabrication of a symmetric two-electrode cell indicate that these materials retain their pseudocapacitive performance over hundreds of galvanostatic charge-discharge cycles, with little degradation even after 1000 cycles.

Ectothiorhodospira lacustris sp. nov., a New Purple Sulfur Bacterium from Low-Mineralized Soda Lakes That Contains a Unique Pathway for Nitric Oxide Reduction.

Several strains of a Gram-negative, anaerobic photoautotrophic, motile, rod-shaped bacterium, designated as B14B, A-7R, and A-7Y were isolated from biofilms of low-mineralized soda lakes in central Mongolia and Russia (southeast Siberia). They had lamellar stacks as photosynthetic structures and bacteriochlorophyll a as the major photosynthetic pigment. The strains were found to grow at 25-35 °C, pH 7.5-10.2 (optimum, pH 9.0), and with 0-8% (w/v) NaCl (optimum, 0%). In the presence of sulfide and bicarbonate, acetate, butyrate, yeast extract, lactate, malate, pyruvate, succinate, and fumarate promoted growth. The DNA G + C content was 62.9-63.0 mol%. While the 16S rRNA gene sequences confirmed that the new strains belonged to the genus Ectothiorhodospira of the Ectothiorhodospiraceae, comparison of the genome nucleotide sequences of strains B14B, A-7R, and A-7Y revealed that the new isolates were remote from all described Ectothiorhodospira species both in dDDH (19.7-38.8%) and in ANI (75.0-89.4%). The new strains are also genetically differentiated by the presence of a nitric oxide reduction pathway that is lacking from all other Ectiothiorhodospiraceae. We propose to assign the isolates to the new species, Ectothiorhodospira lacustris sp. nov., with the type strain B14BT (=DSM 116064T = KCTC 25542T = UQM 41491T).

A Study on Drilling of CFRP/Ti Stacks: Temperature Field and Thermal Damage of the Interface Region.

Carbon fiber reinforced plastics (CFRP)/titanium alloy (Ti) stacks have been widely used in aviation field due to the superior mechanical properties. During integrated drilling of CFRP/Ti stacks, serious damage occurs in the CFRP layer because of the disparate properties of two stack components. Heat accumulation and thermal induced damage are typical and critical issue during drilling stacks, especially in the interface region. In this study, in order to deeply analyze the thermal influence of the interface region, a numerical model based on the finite difference method is developed to predict the three-dimensional drilling temperature field. Experiments with accurate measurement point are conducted to valid the rational of temperature prediction model. The results confirm that the temperature distributions predicted by numerical study have good agreements with the experimental results and the maximum error is about 10.3%. Furtherly, based on the drilling experiments, it can be found that thermal damage induced by cutting heat occurs as discoloration rings around the hole which could cause the elastic modulus of resin matrix decrease. An empirical model of thermal damage with maximum drilling temperature of the interface region are developed with the correlation of R2 = 0.97. The findings point out that as the maximum drilling temperature exceeds 410 °C, serious thermal damage could occur in the resin matrix of CFRP layer.

Influence of Cathode Channel Parameters and Fan Duty Ratio on Low Power Forced-Convection Open-Cathode Proton Exchange Membrane Fuel Cell Stack.

The open-cathode forced-convection proton exchange membrane fuel cell has emerged as a viable option for portable energy sources. The forced-convection open-cathode mode, however, makes the cell's performance sensitive to changes in the cathode channel and fan parameters. In this study, small fuel cell stacks with varying cathode channel depths, widths, and width-rib ratios were assembled, and the effects of different cathode channel parameters and fan duty ratios on cell performance were investigated. The experimental results show that changing the cathode channel parameters has a significant impact on oxidant supply. When the channel width is increased, the cell performance increases first, then decreases. The cell performance decreases as the channel width-rib ratio increases. The performance of the cell improves as the cathode channel depth increases. Furthermore, the experimental results show that decreasing the duty ratio of the fan and using moderate heating improves cell performance.

Whole Genome Wide SSR Markers Identification Based on ddRADseq Data.

The advent of advanced NGS technologies have led to the generation of enormous amount of sequence data which further aid in the discovery of the various type of markers such as SSRs, SNPs, InDels, etc. Among all these markers, microsatellite SSR markers can be mined from the ddRADseq data as certain properties of SSR markers make them ideal markers for study. These assist researchers and breeders in diversity analysis and producing new varieties with desired traits. To extract the markers, first, the ddRADseq data is assembled into consensus sequences using STACKS program which are further assembled for mining microsatellites using QDD along with MISA tool.

Determination of the Subcellular Distribution of Fluorescently Labeled Liposomes Using Confocal Microscopy.

It is being increasingly recognized that therapeutics need to be delivered to specific organelle targets within cells. Liposomes are versatile lipid-based drug delivery vehicles that can be surface modified to deliver the loaded cargo to specific subcellular locations within the cell. Hence, the development of such technology requires a means of measuring subcellular distribution by utilizing imaging techniques that can visualize and quantitate the extent of this subcellular localization. The apparent increase of resolution along the Z-axis offered by confocal microscopy makes this technique suitable for such studies. In this chapter, we will describe the application of confocal laser scanning microscopy (CLSM) to determine the subcellular distribution of fluorescently labeled mitochondriotropic liposomes.

A Numerical Method of Aligning the Optical Stacks for All Pixels.

Reducing performance verification time is significant in product launch and production costs. This is especially true because aligning the optical stacks of off-axis pixels is a time-consuming task, but it is important to maintain sensitivity. In this paper, a numerical method to align the optical stacks of off-axis pixels is suggested in order to reduce performance test time. The components of the numerical method are the optical stack height, refractive index, and chief ray angle in order to calculate the optical stacks' optimal shift distance. The proposed method was investigated to confirm effectiveness by using optical simulation. The sub-micron backside illumination (BSI) pixels were simulated, having 2 × 2 microlens, quad-color filter array, and in-pixel deep trench isolation (DTI). Moreover, the proposed method was evaluated for various pixel pitches, microlens shapes, and CRAs. As a result, the optical stacks were optimized by using the numerical method and validated via optical simulation. Therefore, the proposed numerical method is expected to help reduce the time and cost.

Functional analysis of CqPORB in the regulation of chlorophyll biosynthesis in Chenopodium quinoa.

Protochlorophyllide oxidoreductase (POR) plays a key role in catalyzing the light-dependent reduction of protochlorophyllide (Pchlide) to chlorophyllide (Chlide), and thus promotes the transit from etiolated seedlings to green plants. In this study, by exploring ethyl methanesulfonate (EMS)-mediated mutagenesis in Chenopodium quinoa NL-6 variety, we identified a mutant nl6-35 that displays faded green leaf and reduced chlorophyll (Chl) and carotenoid contents. Bulk segregant analysis (BSA) revealed that a mutation in CqPORB gene is genetically associated with the faded green leaf of the nl6-35 mutant. Further study indicates that the nl6-35 mutant exhibits abnormal grana stacks and compromised conversion of Pchlide to Chlide upon illumination, suggesting the important role of CqPORB in producing photoactive Pchlide. Totally three CqPOR isoforms, including CqPORA, CqPORA-like, and CqPORB are identified in NL-6 variety. Transcriptional analysis shows that the expression of all these three CqPOR isoforms is regulated in light- and development-dependent manners, and in mature quinoa plants only CqPORB isoform is predominantly expressed. Subcellular localization analysis indicates that CqPORB is exclusively localized in chloroplast. Together, our study elucidates the important role of CqPORB in the regulation of Chl biosynthesis and chloroplast development in quinoa.

Lomasomes and Other Fungal Plasma Membrane Macroinvaginations Have a Tubular and Lamellar Genesis.

The plasma membrane of filamentous fungi forms large-sized invaginations, which are either tubes or parietal vesicles. Vesicular macroinvaginations at the ultrastructural level correspond to classical lomasomes. There is an assumption that vesicular macroinvaginations/lomasomes may be involved in macrovesicular endocytosis. The original aim of this study was to test for the presence of macroendocytosis in xylotrophic basidiomycetes using time-lapse and Z-stacks fluorescent microscopic technologies. However, the results were unexpected since most of the membrane structures labeled by the endocytic tracer (FM4-64 analog) are various types of plasma membrane macroinvaginations and not any endomembranes. All of these macroinvaginations have a tubular or lamellar genesis. Moreover, under specific conditions of a microscopic preparation, the diameter of the tubes forming the macroinvaginations increases with the time of the sample observation. In addition, the morphology and successive formation of the macroinvaginations mimic the endocytic pathway; these invaginations can easily be mistaken for endocytic vesicles, endosomes, and vacuole-lysosomes. The paper analyzes the various macroinvagination types, suggests their biological functions, and discusses some features of fungal endocytosis. This study is a next step toward understanding complex fungal physiology and is a presentation of a new intracellular tubular system in wood-decaying fungi.

MembraneDyn: simulating the dynamics of supported membrane stacks on the nanosecond timescale.

The static structure factor and the undulation dynamics of a solid-supported membrane stack have previously been calculated by Romanov and Ul'yanov [Romanov & Ul'yanov (2002). Phys. Rev. E, 66, 061701]. Based on this prior work, the calculation has been extended to cover the membrane dynamics, i.e. the intermediate scattering function as a Fourier transform of the van Hove correlation function of the membrane stack. Fortran code which calculates the intermediate scattering function for a membrane stack on a solid support is presented. It allows the static and dynamic scattering functions to be calculated according to the derivation of Romanov and Ul'yanov. The physical properties of supported phospholipid bilayers can be examined in this way and the results can be directly compared with results obtained from grazing-incidence neutron spin-echo spectroscopy experiments.

Granal thylakoid structure and function: explaining an enduring mystery of higher plants.

In higher plants, photosystems II and I are found in grana stacks and unstacked stroma lamellae, respectively. To connect them, electron carriers negotiate tortuous multi-media paths and are subject to macromolecular blocking. Why does evolution select an apparently unnecessary, inefficient bipartition? Here we systematically explain this perplexing phenomenon. We propose that grana stacks, acting like bellows in accordions, increase the degree of ultrastructural control on photosynthesis through thylakoid swelling/shrinking induced by osmotic water fluxes. This control coordinates with variations in stomatal conductance and the turgor of guard cells, which act like an accordion's air button. Thylakoid ultrastructural dynamics regulate macromolecular blocking/collision probability, direct diffusional pathlengths, division of function of Cytochrome b6 f complex between linear and cyclic electron transport, luminal pH via osmotic water fluxes, and the separation of pH dynamics between granal and lamellar lumens in response to environmental variations. With the two functionally asymmetrical photosystems located distantly from each other, the ultrastructural control, nonphotochemical quenching, and carbon-reaction feedbacks maximally cooperate to balance electron transport with gas exchange, provide homeostasis in fluctuating light environments, and protect photosystems in drought. Grana stacks represent a dry/high irradiance adaptation of photosynthetic machinery to improve fitness in challenging land environments. Our theory unifies many well-known but seemingly unconnected phenomena of thylakoid structure and function in higher plants.