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Shiyu Zhou, Hsin-Ta Wu, Khosrov Sadeghipour, Carmelo Scarcella, Cormac Eason, Marc Rensing, Mark J Power, Cleitus Antony, Peter O'Brien, Paul D Townsend, Peter Ossieur
We demonstrate how to optimize the performance of PAM-4 transmitters based on lumped Silicon Photonic Mach-Zehnder Modulators (MZMs) for short-reach optical links. Firstly, we analyze the trade-off that occurs between extinction ratio and modulation loss when driving an MZM with a voltage swing less than the MZM's V<sub>π</sub>. This is important when driver circuits are realized in deep submicron CMOS process nodes. Next, a driving scheme based upon a switched capacitor approach is proposed to maximize the achievable bandwidth of the combined lumped MZM and CMOS driver chip...
February 20, 2017: Optics Express
Changquan Zhang, Shengjie Chen, Xinyu Ren, Yan Lu, Derui Liu, Xiuling Cai, Qianfeng Li, Jiping Gao, Qiaoquan Liu
OsGBSSI, encoded by the Waxy (Wx) gene, is the key enzyme in synthesis of amylose chains. Transgenic rice lines with varying GBSSI activity were previously developed via site-directed mutagenesis of the Wx gene in the glutinous cultivar Guanglingxiangnuo (GLXN). In this study, grain morphology, molecular structure, and physicochemical properties were investigated in four transgenic lines with modified OsGBSSI activity and differences in amylose content. A milky opaque appearance was observed in low and non-amylose rice grains due to air spaces in the starch granules...
February 27, 2017: Journal of Agricultural and Food Chemistry
Zhenzhen Qiao, Laurent Brechenmacher, Benjamin Smith, Gregory W Strout, William Mangin, Christopher Taylor, Scott D Russell, Gary Stacey, Marc Libault
The soybean gene GmFWL1 (FW2.2-like1) belongs to a plant-specific family that includes the tomato FW2-2 and the maize CNR1 genes, two regulators of plant development. In soybean, GmFWL1 is specifically expressed in root hair cells in response to rhizobia and in nodules. Silencing of GmFWL1 expression significantly reduced nodule numbers supporting its role during soybean nodulation. While the biological role of GmFWL1 has been described, its molecular function and, more generally, the molecular function of plant FW2...
February 27, 2017: Plant, Cell & Environment
Yanlin Fan, Yusong R Guo, Wang Yuan, Ying Zhou, Matthew V Holt, Tao Wang, Borries Demeler, Nicolas L Young, Weiwei Zhong, Yizhi J Tao
Despite the wide use of Caenorhabditis elegans as a model organism, the first virus naturally infecting this organism was not discovered until six years ago. The Orsay virus and its related nematode viruses have a positive-sense RNA genome, encoding three proteins: CP, RdRP, and a novel δ protein that shares no homology with any other proteins. δ can be expressed either as a free δ or a CP-δ fusion protein by ribosomal frameshift, but the structure and function of both δ and CP-δ remain unknown. Using a combination of electron microscopy, X-ray crystallography, computational and biophysical analyses, here we show that the Orsay δ protein forms a ~420-Å long, pentameric fiber with an N-terminal α-helical bundle, a β-stranded filament in the middle, and a C-terminal head domain...
February 27, 2017: PLoS Pathogens
Weixia Wang, Kailong Li, Pinjun Wan, Fengxiang Lai, Qiang Fu, Tingheng Zhu
Twenty-nine cDNAs encoding Ras-like family small GTPases (RSGs) were cloned and sequenced from Nilaparvata lugens. Twenty-eight proteins are described here: 3 from Rho, 2 from Ras, 9 from Arf and 14 from Rabs. These RSGs from N.lugens have five conserved G-loop motifs and displayed a higher degree of sequence conservation with orthologues from insects. RT-qPCR analysis revealed NlRSGs expressed at all life stages and the highest expression was observed in hemolymph, gut or wing for most of NlRSGs. RNAi demonstrated that eighteen NlRSGs play a crucial role in nymphal development...
2017: PloS One
Fumio Matsuda, Syohei Kinoshita, Shunsuke Nishino, Atsumi Tomita, Hiroshi Shimizu
Central carbon metabolism is controlled by modulating the protein abundance profiles of enzymes that maintain the essential systems in living organisms. In this study, metabolic adaptation mechanisms in the model organism Saccharomyces cerevisiae were investigated by direct determination of enzyme abundance levels in 30 wild type and mutant strains. We performed a targeted proteome analysis using S. cerevisiae strains that lack genes encoding the enzymes responsible for central carbon metabolism. Our analysis revealed that at least 30% of the observed variations in enzyme abundance levels could be explained by global regulatory mechanisms...
2017: PloS One
Fabiana Antunes Andrade, Marcia Holsbach Beltrame, Valéria Bumiller Bini, Letícia Boslooper Gonçalves, Angelica Beat Winter Boldt, Iara José de Taborda Messias-Reason
Leprosy is a chronic inflammatory disease caused by Mycobacterium leprae that mainly affects the skin and peripheral nervous system, leading to a high disability rate and social stigma. Previous studies have shown a contribution of genes encoding products of the lectin pathway of complement in the modulation of the susceptibility to leprosy; however, the ficolin-3/FCN3 gene impact on leprosy is currently unknown. The aim of the present study was to investigate if FCN3 polymorphisms (rs532781899: g.1637delC, rs28362807: g...
February 27, 2017: PLoS Neglected Tropical Diseases
Sarah J Smith, Jeffrey C Wang, Vandana A Gupta, James J Dowling
Merosin deficient congenital muscular dystrophy (MDC1A) is a severe neuromuscular disorder with onset in infancy that is associated with severe morbidities (particularly wheelchair dependence) and early mortality. It is caused by recessive mutations in the LAMA2 gene that encodes a subunit of the extracellular matrix protein laminin 211. At present, there are no treatments for this disabling disease. The zebrafish has emerged as a powerful model system for the identification of novel therapies. However, drug discovery in the zebrafish is largely dependent on the identification of phenotypes suitable for chemical screening...
2017: PloS One
Edward Boyda, Saikat Basu, Sangram Ganguly, Andrew Michaelis, Supratik Mukhopadhyay, Ramakrishna R Nemani
Quantum annealing is an experimental and potentially breakthrough computational technology for handling hard optimization problems, including problems of computer vision. We present a case study in training a production-scale classifier of tree cover in remote sensing imagery, using early-generation quantum annealing hardware built by D-wave Systems, Inc. Beginning within a known boosting framework, we train decision stumps on texture features and vegetation indices extracted from four-band, one-meter-resolution aerial imagery from the state of California...
2017: PloS One
Yi Shen, Yingche Chen, Jiahui Wu, Nathan C Shaner, Robert E Campbell
MCherry, the Discosoma sp. mushroom coral-derived monomeric red fluorescent protein (RFP), is a commonly used genetically encoded fluorophore for live cell fluorescence imaging. We have used a combination of protein design and directed evolution to develop mCherry variants with low cytotoxicity to Escherichia coli and altered excitation and emission profiles. These efforts ultimately led to a long Stokes shift (LSS)-mCherry variant (λex = 460 nm and λem = 610 nm) and a red-shifted (RDS)-mCherry variant (λex = 600 nm and λem = 630 nm)...
2017: PloS One
Sylvia Wirth, Pierre Baraduc, Aurélie Planté, Serge Pinède, Jean-René Duhamel
To elucidate how gaze informs the construction of mental space during wayfinding in visual species like primates, we jointly examined navigation behavior, visual exploration, and hippocampal activity as macaque monkeys searched a virtual reality maze for a reward. Cells sensitive to place also responded to one or more variables like head direction, point of gaze, or task context. Many cells fired at the sight (and in anticipation) of a single landmark in a viewpoint- or task-dependent manner, simultaneously encoding the animal's logical situation within a set of actions leading to the goal...
February 2017: PLoS Biology
Joseph Schmidt, Gregory J Zelinsky
We investigated how expected search difficultly affects the attentional template by having participants search for a teddy bear target among either other teddy bears (difficult search, high target-distractor similarity) or random nonbear objects (easy search, low target-distractor similarity). Target previews were identical in these 2 blocked conditions, and target-related visual working memory (VWM) load was measured using contralateral delay activity (CDA), an event-related potential indicating VWM load. CDA was assessed after target designation but before search display onset...
March 2017: Journal of Experimental Psychology. Human Perception and Performance
Eric Trautman, Alan R Healy, Emilee Shine, Seth B Herzon, Jason M Crawford
Modular polyketide synthases (PKSs) and nonribosomal peptide synthetases (NRPSs) comprise giant multidomain enzymes responsible for the "assembly line" biosynthesis of many genetically-encoded small molecules. Site-directed mutagenesis, protein biochemical, and structural studies have focused on elucidating the catalytic mechanisms of individual multidomain proteins and protein domains within these megasynthases. Probing their functions at the cellular level typically has invoked the complete deletion (or overexpression) of multidomain-encoding genes or combinations of genes and comparing those mutants to a control pathway...
February 27, 2017: Journal of the American Chemical Society
Vijeta Raghuram, Sydney Weber, Jacob Raber, Dong-Hui Chen, Thomas D Bird, James Maylie, John P Adelman
Exome sequencing from a patient with neurological and developmental symptoms revealed two mutations in separate genes. One was a homozygous transition mutation that results in an in-frame, premature translational stop codon in the ZNF135 gene predicted to encode a transcriptional repressor. Another mutation was heterozygous, a single nucleotide duplication in the KCNN2 gene that encodes a Ca-activated K channel, SK2, and leads to a translational frame shift and a premature stop codon. Heterologous expression studies, brain slice recordings, and coordination tests from a transgenic mouse line carrying the SK2 mutation suggest that it does not contribute to the patient's symptoms...
February 24, 2017: Neuroreport
Yuhei Oi, Yosuke Kita, Kota Suzuki, Yasuko Okumura, Hideyuki Okuzumi, Haruo Shinoda, Masumi Inagaki
Spatial working memory (SWM) involves both simultaneous and sequential encoding, but the differences in their neural correlates are unclear. We investigated the differences in prefrontal cortex activity related to these SWM encoding types. We also examined the patterns of brain activity influencing individual visuospatial abilities (VSA). We conducted SWM tasks with two different conditions, sequential and simultaneous encoding, and examined hemodynamic activity in 39 healthy adults using near-infrared spectroscopy...
February 24, 2017: Neuroreport
Nicole Herrick, Christopher Davis, Lisa Vargas, Hal Dietz, Paul Grossfeld
: Basketball and volleyball attract individuals with a characteristic biophysical profile, mimicking features of Marfan Syndrome (MFS). Consequently, identification of these abnormalities can be lifesaving. PURPOSE: To determine how physical examination, echocardiography, and genetic screening can identify elite volleyball players with a previously undiagnosed aortopathy. METHODS: We have performed cardiac screening on 90 US Volleyball National Team members and identified four individuals with dilated sinuses of Valsalva...
February 25, 2017: Medicine and Science in Sports and Exercise
Hye Won Kim, Yong-Jin Kwon, Byung Wook Park, Jason Jungsik Song, Yong-Beom Park, Min Chan Park
OBJECTIVES: To determine the differential expressions of nucleotide oligomerisation domain (NOD)-like receptors (NLRs) and to investigate their association with inflammatory responses in rheumatoid arthritis (RA) fibroblast-like synoviocytes (FLS). METHODS: Gene expression and protein levels of various NLRs, including NOD1, NOD2, NLRP1, NLRP3, NLRP12, NLRX1, and NLRC3, were determined in FLS and synovial tissues from patients with RA and patients with osteoarthritis (OA) using quantitative real-time PCR and immunohistochemistry...
February 24, 2017: Clinical and Experimental Rheumatology
Bin He, Chao Yin, Yabin Gong, Jie Liu, Huiduo Guo, Ruqian Zhao
Melatonin, the major pineal secretory product, has a significant impact on the female reproductive system. Recently, the beneficial effects of melatonin on mammalian oocyte maturation and embryonic development have drawn increased attention. However, the exact underlying mechanisms remain to be fully elucidated. This study demonstrates that supplementing melatonin to in vitro maturation (IVM) medium enhances IVM rate, lipid droplets (LDs) accumulation as well as triglyceride content in porcine oocytes. Decrease of mitochondrial membrane potential, mitochondrial respiratory chain complex IV activity as well as mitochondrial reactive oxygen species (mROS) content indicated that melatonin induced a decrease of mitochondrial activity...
February 27, 2017: Journal of Cellular Physiology
Hui Min Lee, Kwok-Wai Lo, Wenbin Wei, Sai Wah Tsao, Grace Tin Yun Chung, Maha Hafez Ibrahim, Christopher W Dawson, Paul G Murray, Ian C Paterson, Lee Fah Yap
Undifferentiated nasopharyngeal carcinoma (NPC) is a cancer with high metastatic potential that is consistently associated with Epstein-Barr virus (EBV) infection. In this study, we have investigated the functional contribution of sphingosine-1-phosphate (S1P) signalling to the pathogenesis of NPC. We show that EBV infection or ectopic expression of the EBV-encoded latent genes (EBNA1, LMP1 and LMP2A) can up-regulate sphingosine kinase 1 (SPHK1), the key enzyme that produces S1P, in NPC cell lines. Exogenous addition of S1P promotes the migration of NPC cells through the activation of AKT; shRNA knockdown of SPHK1 resulted in a reduction in the levels of activated AKT and inhibition of cell migration...
February 27, 2017: Journal of Pathology
Yohei Tanaka, Jun Nakayama
BACKGROUND/OBJECTIVES: Water-filtered broad-spectrum near-infrared irradiation can induce various biological effects, as our previous clinical, histological, and biochemical investigations have shown. However, few studies that examined the changes thus induced in gene expression. The aim was to investigate the changes in gene expression in a 3-dimensional reconstructed epidermal tissue culture exposed to water-filtered broad-spectrum near-infrared irradiation. METHODS: DNA microarray and quantitative real-time polymerase chain reaction (PCR) analysis was used to assess gene expression levels in a 3-dimensional reconstructed epidermal model composed of normal human epidermal cells exposed to water-filtered broad-spectrum near-infrared irradiation...
February 27, 2017: Australasian Journal of Dermatology
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