Impact of the Regulators SigB, Rot, SarA and sarS on the Toxic Shock Tst Promoter and TSST-1 Expression in Staphylococcus aureus.

Directory of Open Access Journals (Sweden)

Diego O Andrey

Full Text Available Staphylococcus aureus is an important pathogen manifesting virulence through diverse disease forms, ranging from acute skin infections to life-threatening bacteremia or systemic toxic shock syndromes. In the latter case, the prototypical superantigen is TSST-1 (Toxic Shock Syndrome Toxin 1, encoded by tst(H, and carried on a mobile genetic element that is not present in all S. aureus strains. Transcriptional regulation of tst is only partially understood. In this study, we dissected the role of sarA, sarS (sarH1, RNAIII, rot, and the alternative stress sigma factor sigB (σB. By examining tst promoter regulation predominantly in the context of its native sequence within the SaPI1 pathogenicity island of strain RN4282, we discovered that σB emerged as a particularly important tst regulator. We did not detect a consensus σB site within the tst promoter, and thus the effect of σB is likely indirect. We found that σB strongly repressed the expression of the toxin via at least two distinct regulatory pathways dependent upon sarA and agr. Furthermore rot, a member of SarA family, was shown to repress tst expression when overexpressed, although its deletion had no consistent measurable effect. We could not find any detectable effect of sarS, either by deletion or overexpression, suggesting that this regulator plays a minimal role in TSST-1 expression except when combined with disruption of sarA. Collectively, our results extend our understanding of complex multifactorial regulation of tst, revealing several layers of negative regulation. In addition to environmental stimuli thought to impact TSST-1 production, these findings support a model whereby sporadic mutation in a few key negative regulators can profoundly affect and enhance TSST-1 expression.

Combinatorial synthetic peptide vaccine strategy protects against hypervirulent CovR/S mutant streptococci

DEFF Research Database (Denmark)

Pandey, Manisha; Mortensen, Rasmus; Calcutt, Ainslie

2016-01-01

-mediated killing and enabling ingress of bacteria from a superficial wound to deep tissue.We previously showed that a combination vaccine incorporating J8-DT (conserved peptide vaccine from theM protein) and a recombinant SpyCEP fragment protects against CovR/S mutants. To enhance the vaccine's safety profile, we......), and it would be to the organism's advantage if the host did not induce a strong Ab response against it. However, S2 conjugated to diphtheria toxoid is highly immunogenic and induces Abs that recognize and neutralize SpyCEP. Hence, we describe a two-component peptide vaccine that induces Abs (anti-S2....... This protection correlated with a significant influx of neutrophils to the infection site. The data strongly suggest that the lack of natural immunity to hypervirulent GAS strains in humans could be rectified by this combination vaccine....

HLA-A*0201 T-cell epitopes in severe acute respiratory syndrome (SARS) coronavirus nucleocapsid and spike proteins

International Nuclear Information System (INIS)

Tsao, Y.-P.; Lin, J.-Y.; Jan, J.-T.; Leng, C.-H.; Chu, C.-C.; Yang, Y.-C.; Chen, S.-L.

2006-01-01

The immunogenicity of HLA-A*0201-restricted cytotoxic T lymphocyte (CTL) peptide in severe acute respiratory syndrome coronavirus (SARS-CoV) nuclear capsid (N) and spike (S) proteins was determined by testing the proteins' ability to elicit a specific cellular immune response after immunization of HLA-A2.1 transgenic mice and in vitro vaccination of HLA-A2.1 positive human peripheral blood mononuclearcytes (PBMCs). First, we screened SARS N and S amino acid sequences for allele-specific motif matching those in human HLA-A2.1 MHC-I molecules. From HLA peptide binding predictions (http://thr.cit.nih.gov/molbio/hla_bind/), ten each potential N- and S-specific HLA-A2.1-binding peptides were synthesized. The high affinity HLA-A2.1 peptides were validated by T2-cell stabilization assays, with immunogenicity assays revealing peptides N223-231, N227-235, and N317-325 to be First identified HLA-A*0201-restricted CTL epitopes of SARS-CoV N protein. In addition, previous reports identified three HLA-A*0201-restricted CTL epitopes of S protein (S978-986, S1203-1211, and S1167-1175), here we found two novel peptides S787-795 and S1042-1050 as S-specific CTL epitopes. Moreover, our identified N317-325 and S1042-1050 CTL epitopes could induce recall responses when IFN-γ stimulation of blood CD8 + T-cells revealed significant difference between normal healthy donors and SARS-recovered patients after those PBMCs were in vitro vaccinated with their cognate antigen. Our results would provide a new insight into the development of therapeutic vaccine in SARS

Les composés organiques volatils réduction des émissions de COV dans l'industrie

CERN Document Server

2013-01-01

Cet ouvrage propose des solutions techniques et une méthodologie pour réduire les émissions de composés organiques volatils (COV) dans l’atmosphère. Il permet : • de connaître l’impact des COV sur l’environnement et sur la santé, ainsi que les réglementations applicables en France et en Europe ; • de choisir les solutions d’amélioration disponibles (prévention, réduction à la source par secteur industriel, technologies de traitement et méthodes de mesure) ; • d’obtenir les clés pour mett re en place une démarche de réduction des émissions de COV (les étapes et les accompagnements possibles) ; • d’observer des exemples réussis d’investissement dans l’industrie. Cet ouvrage est un outil de travail indispensable pour les entreprises concernées par cett e problématique. Il donne les éléments essentiels pour aborder sereinement une démarche de réduction des émissions de COV. Points forts : • Des données rassemblées par un réseau d’experts spécialisés dans...

Immune responses against SARS-coronavirus nucleocapsid protein induced by DNA vaccine

International Nuclear Information System (INIS)

Zhao Ping; Cao Jie; Zhao Lanjuan; Qin Zhaolin; Ke Jinshan; Pan Wei; Ren Hao; Yu Jianguo; Qi Zhongtian

2005-01-01

The nucleocapsid (N) protein of SARS-coronavirus (SARS-CoV) is the key protein for the formation of the helical nucleocapsid during virion assembly. This protein is believed to be more conserved than other proteins of the virus, such as spike and membrane glycoprotein. In this study, the N protein of SARS-CoV was expressed in Escherichia coli DH5α and identified with pooled sera from patients in the convalescence phase of SARS. A plasmid pCI-N, encoding the full-length N gene of SARS-CoV, was constructed. Expression of the N protein was observed in COS1 cells following transfection with pCI-N. The immune responses induced by intramuscular immunization with pCI-N were evaluated in a murine model. Serum anti-N immunoglobulins and splenocytes proliferative responses against N protein were observed in immunized BALB/c mice. The major immunoglobulin G subclass recognizing N protein was immunoglobulin G2a, and stimulated splenocytes secreted high levels of gamma interferon and IL-2 in response to N protein. More importantly, the immunized mice produced strong delayed-type hypersensitivity (DTH) and CD8 + CTL responses to N protein. The study shows that N protein of SARS-CoV not only is an important B cell immunogen, but also can elicit broad-based cellular immune responses. The results indicate that the N protein may be of potential value in vaccine development for specific prophylaxis and treatment against SARS

The nonstructural protein 8 (nsp8) of the SARS coronavirus interacts with its ORF6 accessory protein

International Nuclear Information System (INIS)

Kumar, Purnima; Gunalan, Vithiagaran; Liu Boping; Chow, Vincent T.K.; Druce, Julian; Birch, Chris; Catton, Mike; Fielding, Burtram C.; Tan, Yee-Joo; Lal, Sunil K.

2007-01-01

Severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) caused a severe outbreak in several regions of the world in 2003. The SARS-CoV genome is predicted to contain 14 functional open reading frames (ORFs). The first ORF (1a and 1b) encodes a large polyprotein that is cleaved into nonstructural proteins (nsp). The other ORFs encode for four structural proteins (spike, membrane, nucleocapsid and envelope) as well as eight SARS-CoV-specific accessory proteins (3a, 3b, 6, 7a, 7b, 8a, 8b and 9b). In this report we have cloned the predicted nsp8 gene and the ORF6 gene of the SARS-CoV and studied their abilities to interact with each other. We expressed the two proteins as fusion proteins in the yeast two-hybrid system to demonstrate protein-protein interactions and tested the same using a yeast genetic cross. Further the strength of the interaction was measured by challenging growth of the positive interaction clones on increasing gradients of 2-amino trizole. The interaction was then verified by expressing both proteins separately in-vitro in a coupled-transcription translation system and by coimmunoprecipitation in mammalian cells. Finally, colocalization experiments were performed in SARS-CoV infected Vero E6 mammalian cells to confirm the nsp8-ORF6 interaction. To the best of our knowledge, this is the first report of the interaction between a SARS-CoV accessory protein and nsp8 and our findings suggest that ORF6 protein may play a role in virus replication

Effect of the Streptococcus agalactiae Virulence Regulator CovR on the Pathogenesis of Urinary Tract Infection.

Science.gov (United States)

Sullivan, Matthew J; Leclercq, Sophie Y; Ipe, Deepak S; Carey, Alison J; Smith, Joshua P; Voller, Nathan; Cripps, Allan W; Ulett, Glen C

2017-02-01

Streptococcus agalactiae can cause urinary tract infection (UTI). The role of the S. agalactiae global virulence regulator, CovR, in UTI pathogenesis is unknown. We used murine and human bladder uroepithelial cell models of UTI and S. agalactiae mutants in covR and related factors, including β-hemolysin/cytolysin (β-h/c), surface-anchored adhesin HvgA, and capsule to study the role of CovR in UTI. We found that covR-deficient serotype III S. agalactiae 874391 was significantly attenuated for colonization in mice and adhesion to uroepithelial cells. Mice infected with covR-deficient S. agalactiae produced less proinflammatory cytokines than those infected with wild-type 874391. Acute cytotoxicity in uroepithelial cells triggered by covR-deficient but not wild-type 874391 was associated with significant caspase 3 activation. Mechanistically, covR mutation significantly altered the expression of several genes in S. agalactiae 874391 that encode key virulence factors, including β-h/c and HvgA, but not capsule. Subsequent mutational analyses revealed that HvgA and capsule, but not the β-h/c, exerted significant effects on colonization of the murine urinary tract in vivo. S. agalactiae CovR promotes bladder infection and inflammation, as well as adhesion to and viability of uroepithelial cells. The pathogenesis of S. agalactiae UTI is complex, multifactorial, and influenced by virulence effects of CovR, HvgA, and capsule. © The Author 2016. Published by Oxford University Press for the Infectious Diseases Society of America. All rights reserved. For permissions, e-mail: journals.permissions@oup.com.

Srv mediated dispersal of streptococcal biofilms through SpeB is observed in CovRS+ strains.

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Kristie L Connolly

Full Text Available Group A Streptococcus (GAS is a human specific pathogen capable of causing both mild infections and severe invasive disease. We and others have shown that GAS is able to form biofilms during infection. That is to say, they form a three-dimensional, surface attached structure consisting of bacteria and a multi-component extracellular matrix. The mechanisms involved in regulation and dispersal of these GAS structures are still unclear. Recently we have reported that in the absence of the transcriptional regulator Srv in the MGAS5005 background, the cysteine protease SpeB is constitutively produced, leading to increased tissue damage and decreased biofilm formation during a subcutaneous infection in a mouse model. This was interesting because MGAS5005 has a naturally occurring mutation that inactivates the sensor kinase domain of the two component regulatory system CovRS. Others have previously shown that strains lacking covS are associated with decreased SpeB production due to CovR repression of speB expression. Thus, our results suggest the inactivation of srv can bypass CovR repression and lead to constitutive SpeB production. We hypothesized that Srv control of SpeB production may be a mechanism to regulate biofilm dispersal and provide a mechanism by which mild infection can transition to severe disease through biofilm dispersal. The question remained however, is this mechanism conserved among GAS strains or restricted to the unique genetic makeup of MGAS5005. Here we show that Srv mediated control of SpeB and biofilm dispersal is conserved in the invasive clinical isolates RGAS053 (serotype M1 and MGAS315 (serotype M3, both of which have covS intact. This work provides additional evidence that Srv regulated control of SpeB may mediate biofilm formation and dispersal in diverse strain backgrounds.

A study on antigenicity and receptor-binding ability of fragment 450-650 of the spike protein of SARS coronavirus

International Nuclear Information System (INIS)

Zhao Jincun; Wang Wei; Yuan Zhihong; Jia Rujing; Zhao Zhendong; Xu Xiaojun; Lv Ping; Zhang Yan; Jiang Chengyu; Gao Xiaoming

2007-01-01

The spike (S) protein of SARS coronavirus (SARS-CoV) is responsible for viral binding with ACE2 molecules. Its receptor-binding motif (S-RBM) is located between residues 424 and 494, which folds into 2 anti-parallel β-sheets, β5 and β6. We have previously demonstrated that fragment 450-650 of the S protein (S450-650) is predominantly recognized by convalescent sera of SARS patients. The N-terminal 60 residues (450-510) of the S450-650 fragment covers the entire β6 strand of S-RBM. In the present study, we demonstrate that patient sera predominantly recognized 2 linear epitopes outside the β6 fragment, while the mouse antisera, induced by immunization of BALB/c mice with recombinant S450-650, mainly recognized the β6 strand-containing region. Unlike patient sera, however, the mouse antisera were unable to inhibit the infectivity of S protein-expressing (SARS-CoV-S) pseudovirus. Fusion protein between green fluorescence protein (GFP) and S450-650 (S450-650-GFP) was able to stain Vero E6 cells and deletion of the β6 fragment rendered the fusion product (S511-650-GFP) unable to do so. Similarly, recombinant S450-650, but not S511-650, was able to block the infection of Vero E6 cells by the SARS-CoV-S pseudovirus. Co-precipitation experiments confirmed that S450-650 was able to specifically bind with ACE2 molecules in lysate of Vero E6 cells. However, the ability of S450-510, either alone or in fusion with GFP, to bind with ACE2 was significantly poorer compared with S450-650. Our data suggest a possibility that, although the β6 strand alone is able to bind with ACE2 with relatively high affinity, residues outside the S-RBM could also assist the receptor binding of SARS-CoV-S protein

Dictionary-Based Stochastic Expectation–Maximization for SAR Amplitude Probability Density Function Estimation

OpenAIRE

Moser , Gabriele; Zerubia , Josiane; Serpico , Sebastiano B.

2006-01-01

International audience; In remotely sensed data analysis, a crucial problem is represented by the need to develop accurate models for the statistics of the pixel intensities. This paper deals with the problem of probability density function (pdf) estimation in the context of synthetic aperture radar (SAR) amplitude data analysis. Several theoretical and heuristic models for the pdfs of SAR data have been proposed in the literature, which have been proved to be effective for different land-cov...

Molecular dynamics of Middle East Respiratory Syndrome Coronavirus (MERS CoV) fusion heptad repeat trimers

KAUST Repository

Kandeel, Mahmoud

2018-05-17

Structural studies related to Middle East Respiratory Syndrome Coronavirus (MERS CoV) infection process are so limited. In this study, molecular dynamics (MD) simulation was carried out to unravel changes in the MERS CoV heptad repeat domains (HRs) and factors affecting fusion state HR stability. Results indicated that HR trimer is more rapidly stabilized, having stable system energy and lowest root mean square deviations (RMSDs). While trimers were the predominant active form of CoVs HR, monomers were also discovered in both of viral and cellular membranes. In order to find the differences between S2 monomer and trimer molecular dynamics, S2 monomer were modelled and subjected to MD simulation. In contrast to S2 trimer, S2 monomer was unstable, having high RMSDs with major drifts above 8 Å. Fluctuation of HR residue positions revealed major changes in the C-terminal of HR2 and the linker coil between HR1 and HR2 in both monomer and trimer. Hydrophobic residues at the “a” and “d” positions of HR helices stabilize the whole system, having minimal changes in RMSD. The global distance test and contact area difference scores support instability of MERS CoV S2 monomer. Analysis of HR1-HR2 inter-residue contacts and interaction energy revealed three different energy scales along HR helices. Two strong interaction energies were identified at the start of the HR2 helix and at the C-terminal of HR2. The identified critical residues by MD simulation and residues at a and d position of HR helix were strong stabilizers of HRs recognition.

An 8 bit 1 MS/s SAR ADC with 7.72-ENOB

Science.gov (United States)

Duan, Jihai; Zhu, Zhiyong; Deng, Jinli; Xu, Weilin

2017-08-01

This paper presents a low power 8-bit 1 MS/s SAR ADC with 7.72-bit ENOB. Without an op-amp, an improved segmented capacitor DAC is proposed to reduce the capacitance and the chip area. A dynamic latch comparator with output offset voltage storage technology is used to improve the precision. Adding an extra positive feedback in the latch is to increase the speed. What is more, two pairs of CMOS switches are utilized to eliminate the kickback noise introduced by the latch. The proposed SAR ADC was fabricated in SMIC 0.18 {{μ }}{{m}} CMOS technology. The measured results show that this design achieves an SFDR of 61.8 dB and an ENOB of 7.72 bits, and it consumes 67.5 μW with the FOM of 312 fJ/conversion-step at 1 MS/s sample under 1.8 V power supply. Project supported by the National Natural Science Foundation of China (Nos. 61161003, 61264001, 61166004) and the Guangxi Key Laboratory of Precision Navigation Technology and Application Foundation (No. DH201501).

Synthesis and SAR studies of benzyl ether derivatives as potent orally active S1P₁ agonists.

Science.gov (United States)

Tsuji, Takashi; Suzuki, Keisuke; Nakamura, Tsuyoshi; Goto, Taiji; Sekiguchi, Yukiko; Ikeda, Takuya; Fukuda, Takeshi; Takemoto, Toshiyasu; Mizuno, Yumiko; Kimura, Takako; Kawase, Yumi; Nara, Futoshi; Kagari, Takashi; Shimozato, Takaichi; Yahara, Chizuko; Inaba, Shinichi; Honda, Tomohiro; Izumi, Takashi; Tamura, Masakazu; Nishi, Takahide

2014-08-01

We report herein the synthesis and structure-activity relationships (SAR) of a series of benzyl ether compounds as an S1P₁ receptor modulator. From our SAR studies, the installation of substituents onto the central benzene ring of 2a was revealed to potently influence the S1P₁ and S1P₃ agonistic activities, in particular, an ethyl group on the 2-position afforded satisfactory S1P₁/S1P₃ selectivity. These changes of the S1P₁ and S1P₃ agonistic activities caused by the alteration of substituents on the 2-position were reasonably explained by a docking study using an S1P₁ X-ray crystal structure and S1P₃ homology modeling. We found that compounds 2b and 2e had a potent in vivo immunosuppressive efficacy along with acceptable S1P₁/S1P₃ selectivity, and confirmed that these compounds had less in vivo bradycardia risk through the evaluation of heart rate change after oral administration of the compounds (30 mg/kg, p.o.) in rats. Copyright © 2014 Elsevier Ltd. All rights reserved.

Identification of the proteins responsible for SAR DNA binding in nuclear matrix of ''Cucurbita pepo''

International Nuclear Information System (INIS)

Rzepecki, R.; Markiewicz, E.; Szopa, J.

1995-01-01

The nuclear matrices from White bush (''Cucurbita pepo var. patisonina'') cell nuclei have been isolated using three methods: I, standard procedure involving extraction of cell nuclei with 2 M NaCl and 1% Triton X-100; II, the same with pre-treatment of cell nuclei with 0.5 mM CuSO 4 (stabilisation step); and III, method with extraction by lithium diiodosalicylate (LIS), and compared the polypeptide pattern. The isolated matrices specifically bind SAR DNA derived from human β-interferon gene in the exogenous SAR binding assay and in the gel mobility shift assay. Using IgG against the 32 kDa endonuclease we have found in the DNA-protein blot assay that this protein is one of the proteins binding SAR DNA. We have identified three proteins with molecular mass of 65 kDa, 60 kDa and 32 kDa which are responsible for SAR DNA binding in the gel mobility shift assay experiments. (author). 21 refs, 3 figs

A virus-binding hot spot on human angiotensin-converting enzyme 2 is critical for binding of two different coronaviruses.

Science.gov (United States)

Wu, Kailang; Chen, Lang; Peng, Guiqing; Zhou, Wenbo; Pennell, Christopher A; Mansky, Louis M; Geraghty, Robert J; Li, Fang

2011-06-01

How viruses evolve to select their receptor proteins for host cell entry is puzzling. We recently determined the crystal structures of NL63 coronavirus (NL63-CoV) and SARS coronavirus (SARS-CoV) receptor-binding domains (RBDs), each complexed with their common receptor, human angiotensin-converting enzyme 2 (hACE2), and proposed the existence of a virus-binding hot spot on hACE2. Here we investigated the function of this hypothetical hot spot using structure-guided biochemical and functional assays. The hot spot consists of a salt bridge surrounded by hydrophobic tunnel walls. Mutations that disturb the hot spot structure have significant effects on virus/receptor interactions, revealing critical energy contributions from the hot spot structure. The tunnel structure at the NL63-CoV/hACE2 interface is more compact than that at the SARS-CoV/hACE2 interface, and hence RBD/hACE2 binding affinities are decreased either by NL63-CoV mutations decreasing the tunnel space or by SARS-CoV mutations increasing the tunnel space. Furthermore, NL63-CoV RBD inhibits hACE2-dependent transduction by SARS-CoV spike protein, a successful application of the hot spot theory that has the potential to become a new antiviral strategy against SARS-CoV infections. These results suggest that the structural features of the hot spot on hACE2 were among the driving forces for the convergent evolution of NL63-CoV and SARS-CoV.

Genome-wide analysis of protein-protein interactions and involvement of viral proteins in SARS-CoV replication.

Directory of Open Access Journals (Sweden)

Ji'an Pan

Full Text Available Analyses of viral protein-protein interactions are an important step to understand viral protein functions and their underlying molecular mechanisms. In this study, we adopted a mammalian two-hybrid system to screen the genome-wide intraviral protein-protein interactions of SARS coronavirus (SARS-CoV and therefrom revealed a number of novel interactions which could be partly confirmed by in vitro biochemical assays. Three pairs of the interactions identified were detected in both directions: non-structural protein (nsp 10 and nsp14, nsp10 and nsp16, and nsp7 and nsp8. The interactions between the multifunctional nsp10 and nsp14 or nsp16, which are the unique proteins found in the members of Nidovirales with large RNA genomes including coronaviruses and toroviruses, may have important implication for the mechanisms of replication/transcription complex assembly and functions of these viruses. Using a SARS-CoV replicon expressing a luciferase reporter under the control of a transcription regulating sequence, it has been shown that several viral proteins (N, X and SUD domains of nsp3, and nsp12 provided in trans stimulated the replicon reporter activity, indicating that these proteins may regulate coronavirus replication and transcription. Collectively, our findings provide a basis and platform for further characterization of the functions and mechanisms of coronavirus proteins.

Elevated plasma surfactant protein D (SP-D) levels and a direct correlation with anti-severe acute respiratory syndrome coronavirus-specific IgG antibody in SARS patients

DEFF Research Database (Denmark)

Wu, Y P; Liu, Z H; Wei, R

2009-01-01

Pulmonary SP-D is a defence lectin promoting clearance of viral infections. SP-D is recognized to bind the S protein of SARS-CoV and enhance phagocytosis. Moreover, systemic SP-D is widely used as a biomarker of alveolar integrity. We investigated the relation between plasma SP-D, SARS-type pneum......Pulmonary SP-D is a defence lectin promoting clearance of viral infections. SP-D is recognized to bind the S protein of SARS-CoV and enhance phagocytosis. Moreover, systemic SP-D is widely used as a biomarker of alveolar integrity. We investigated the relation between plasma SP-D, SARS......-type pneumonia and the SARS-specific IgG response. Sixteen patients with SARS, 19 patients with community-acquired pneumonia (CAP) (Streptococcus pneumonia) and 16 healthy control subjects were enrolled in the study. Plasma SP-D and anti-SARS-CoV N protein IgG were measured using ELISA. SP-D was significantly...... elevated in SARS-type pneumonia [median (95% CI), 453 (379-963) ng/ml versus controls 218 (160-362) ng/ml, P protein IgG (r(2) = 0.5995, P = 0.02). The possible re-emergence of SARS or SARS-like infections suggests a need...

Detection and full genome characterization of two beta CoV viruses related to Middle East respiratory syndrome from bats in Italy.

Science.gov (United States)

Moreno, Ana; Lelli, Davide; de Sabato, Luca; Zaccaria, Guendalina; Boni, Arianna; Sozzi, Enrica; Prosperi, Alice; Lavazza, Antonio; Cella, Eleonora; Castrucci, Maria Rita; Ciccozzi, Massimo; Vaccari, Gabriele

2017-12-19

Middle East respiratory syndrome coronavirus (MERS-CoV), which belongs to beta group of coronavirus, can infect multiple host species and causes severe diseases in humans. Multiple surveillance and phylogenetic studies suggest a bat origin. In this study, we describe the detection and full genome characterization of two CoVs closely related to MERS-CoV from two Italian bats, Pipistrellus kuhlii and Hypsugo savii. Pool of viscera were tested by a pan-coronavirus RT-PCR. Virus isolation was attempted by inoculation in different cell lines. Full genome sequencing was performed using the Ion Torrent platform and phylogenetic trees were performed using IQtree software. Similarity plots of CoV clade c genomes were generated by using SSE v1.2. The three dimensional macromolecular structure (3DMMS) of the receptor binding domain (RBD) in the S protein was predicted by sequence-homology method using the protein data bank (PDB). Both samples resulted positive to the pan-coronavirus RT-PCR (IT-batCoVs) and their genome organization showed identical pattern of MERS CoV. Phylogenetic analysis showed a monophyletic group placed in the Beta2c clade formed by MERS-CoV sequences originating from humans and camels and bat-related sequences from Africa, Italy and China. The comparison of the secondary and 3DMMS of the RBD of IT-batCoVs with MERS, HKU4 and HKU5 bat sequences showed two aa deletions located in a region corresponding to the external subdomain of MERS-RBD in IT-batCoV and HKU5 RBDs. This study reported two beta CoVs closely related to MERS that were obtained from two bats belonging to two commonly recorded species in Italy (P. kuhlii and H. savii). The analysis of the RBD showed similar structure in IT-batCoVs and HKU5 respect to HKU4 sequences. Since the RBD domain of HKU4 but not HKU5 can bind to the human DPP4 receptor for MERS-CoV, it is possible to suggest also for IT-batCoVs the absence of DPP4-binding potential. More surveillance studies are needed to better

Determination and application of immunodominant regions of SARS coronavirus spike and nucleocapsid proteins recognized by sera from different animal species.

Science.gov (United States)

Yu, Meng; Stevens, Vicky; Berry, Jody D; Crameri, Gary; McEachern, Jennifer; Tu, Changchun; Shi, Zhengli; Liang, Guodong; Weingartl, Hana; Cardosa, Jane; Eaton, Bryan T; Wang, Lin-Fa

2008-02-29

Knowledge of immunodominant regions in major viral antigens is important for rational design of effective vaccines and diagnostic tests. Although there have been many reports of such work done for SARS-CoV, these were mainly focused on the immune responses of humans and mice. In this study, we aim to search for and compare immunodominant regions of the spike (S) and nucleocapsid (N) proteins which are recognized by sera from different animal species, including mouse, rat, rabbit, civet, pig and horse. Twelve overlapping recombinant protein fragments were produced in Escherichia coli, six each for the S and N proteins, which covered the entire coding region of the two proteins. Using a membrane-strip based Western blot approach, the reactivity of each antigen fragment against a panel of animal sera was determined. Immunodominant regions containing linear epitopes, which reacted with sera from all the species tested, were identified for both proteins. The S3 fragment (aa 402-622) and the N4 fragment (aa 220-336) were the most immunodominant among the six S and N fragments, respectively. Antibodies raised against the S3 fragment were able to block the binding of a panel of S-specific monoclonal antibodies (mAb) to SARS-CoV in ELISA, further demonstrating the immunodominance of this region. Based on these findings, one-step competition ELISAs were established which were able to detect SARS-CoV antibodies from human and at least seven different animal species. Considering that a large number of animal species are known to be susceptible to SARS-CoV, these assays will be a useful tool to trace the origin and transmission of SARS-CoV and to minimise the risk of animal-to-human transmission.

Chinese HJ-1C SAR And Its Wind Mapping Capability

Science.gov (United States)

Huang, Weigen; Chen, Fengfeng; Yang, Jingsong; Fu, Bin; Chen, Peng; Zhang, Chan

2010-04-01

Chinese Huan Jing (HJ)-1C synthetic aperture radar (SAR) satellite has been planed to be launched in 2010. HJ-1C satellite will fly in a sun-synchronous polar orbit of 500-km altitude. SAR will be the only sensor on board the satellite. It operates in S band with VV polarization. Its image mode has the incidence angles 25°and 47°at the near and far sides of the swath respectively. There are two selectable SAR modes of operation, which are fine resolution beams and standard beams respectively. The sea surface wind mapping capability of the SAR has been examined using M4S radar imaging model developed by Romeiser. The model is based on Bragg scattering theory in a composite surface model expansion. It accounts for contributions of the full ocean wave spectrum to the radar backscatter from ocean surface. The model reproduces absolute normalized radar cross section (NRCS) values for wide ranges of wind speeds. The model results of HJ-1C SAR have been compared with the model results of Envisat ASAR. It shows that HJ-1C SAR is as good as Envisat ASAR at sea surface wind mapping.

Transcriptional profiling of Vero E6 cells over-expressing SARS-CoV S2 subunit: Insights on viral regulation of apoptosis and proliferation

International Nuclear Information System (INIS)

Yeung, Y.-S.; Yip, C.-W.; Hon, C.-C.; Chow, Ken Y.C.; Ma, Iris C.M.; Zeng Fanya; Leung, Frederick C.C.

2008-01-01

We have previously demonstrated that over-expression of spike protein (S) of severe acute respiratory syndrome coronavirus (SARS-CoV) or its C-terminal subunit (S2) is sufficient to induce apoptosis in vitro. To further investigate the possible roles of S2 in SARS-CoV-induced apoptosis and pathogenesis of SARS, we characterized the host expression profiles induced upon S2 over-expression in Vero E6 cells by oligonucleotide microarray analysis. Possible activation of mitochondrial apoptotic pathway in S2 expressing cells was suggested, as evidenced by the up-regulation of cytochrome c and down-regulation of the Bcl-2 family anti-apoptotic members. Inhibition of Bcl-2-related anti-apoptotic pathway was further supported by the diminution of S2-induced apoptosis in Vero E6 cells over-expressing Bcl-xL. In addition, modulation of CCN E2 and CDKN 1A implied the possible control of cell cycle arrest at G1/S phase. This study is expected to extend our understanding on the pathogenesis of SARS at a molecular level

p53 down-regulates SARS coronavirus replication and is targeted by the SARS-unique domain and PLpro via E3 ubiquitin ligase RCHY1

Science.gov (United States)

Ma-Lauer, Yue; Carbajo-Lozoya, Javier; Müller, Marcel A.; Deng, Wen; Lei, Jian; Meyer, Benjamin; Kusov, Yuri; von Brunn, Brigitte; Bairad, Dev Raj; Hünten, Sabine; Drosten, Christian; Hermeking, Heiko; Leonhardt, Heinrich; Mann, Matthias; Hilgenfeld, Rolf; von Brunn, Albrecht

2016-01-01

Highly pathogenic severe acute respiratory syndrome coronavirus (SARS-CoV) has developed strategies to inhibit host immune recognition. We identify cellular E3 ubiquitin ligase ring-finger and CHY zinc-finger domain-containing 1 (RCHY1) as an interacting partner of the viral SARS-unique domain (SUD) and papain-like protease (PLpro), and, as a consequence, the involvement of cellular p53 as antagonist of coronaviral replication. Residues 95–144 of RCHY1 and 389–652 of SUD (SUD-NM) subdomains are crucial for interaction. Association with SUD increases the stability of RCHY1 and augments RCHY1-mediated ubiquitination as well as degradation of p53. The calcium/calmodulin-dependent protein kinase II delta (CAMK2D), which normally influences RCHY1 stability by phosphorylation, also binds to SUD. In vivo phosphorylation shows that SUD does not regulate phosphorylation of RCHY1 via CAMK2D. Similarly to SUD, the PLpros from SARS-CoV, MERS-CoV, and HCoV-NL63 physically interact with and stabilize RCHY1, and thus trigger degradation of endogenous p53. The SARS-CoV papain-like protease is encoded next to SUD within nonstructural protein 3. A SUD–PLpro fusion interacts with RCHY1 more intensively and causes stronger p53 degradation than SARS-CoV PLpro alone. We show that p53 inhibits replication of infectious SARS-CoV as well as of replicons and human coronavirus NL63. Hence, human coronaviruses antagonize the viral inhibitor p53 via stabilizing RCHY1 and promoting RCHY1-mediated p53 degradation. SUD functions as an enhancer to strengthen interaction between RCHY1 and nonstructural protein 3, leading to a further increase in in p53 degradation. The significance of these findings is that down-regulation of p53 as a major player in antiviral innate immunity provides a long-sought explanation for delayed activities of respective genes. PMID:27519799

Differential sensitivity of bat cells to infection by enveloped RNA viruses: coronaviruses, paramyxoviruses, filoviruses, and influenza viruses.

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Markus Hoffmann

Full Text Available Bats (Chiroptera host major human pathogenic viruses including corona-, paramyxo, rhabdo- and filoviruses. We analyzed six different cell lines from either Yinpterochiroptera (including African flying foxes and a rhinolophid bat or Yangochiroptera (genera Carollia and Tadarida for susceptibility to infection by different enveloped RNA viruses. None of the cells were sensitive to infection by transmissible gastroenteritis virus (TGEV, a porcine coronavirus, or to infection mediated by the Spike (S protein of SARS-coronavirus (SARS-CoV incorporated into pseudotypes based on vesicular stomatitis virus (VSV. The resistance to infection was overcome if cells were transfected to express the respective cellular receptor, porcine aminopeptidase N for TGEV or angiotensin-converting enzyme 2 for SARS-CoV. VSV pseudotypes containing the S proteins of two bat SARS-related CoV (Bg08 and Rp3 were unable to infect any of the six tested bat cell lines. By contrast, viral pseudotypes containing the surface protein GP of Marburg virus from the family Filoviridae infected all six cell lines though at different efficiency. Notably, all cells were sensitive to infection by two paramyxoviruses (Sendai virus and bovine respiratory syncytial virus and three influenza viruses from different subtypes. These results indicate that bat cells are more resistant to infection by coronaviruses than to infection by paramyxoviruses, filoviruses and influenza viruses. Furthermore, these results show a receptor-dependent restriction of the infection of bat cells by CoV. The implications for the isolation of coronaviruses from bats are discussed.

The SARS Coronavirus 3a protein causes endoplasmic reticulum stress and induces ligand-independent downregulation of the type 1 interferon receptor.

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Rinki Minakshi

2009-12-01

Full Text Available The Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV is reported to cause apoptosis of infected cells and several of its proteins including the 3a accessory protein, are pro-apoptotic. Since the 3a protein localizes to the endoplasmic reticulum (ER-Golgi compartment, its role in causing ER stress was investigated in transiently transfected cells. Cells expressing the 3a proteins showed ER stress based on activation of genes for the ER chaperones GRP78 and GRP94. Since ER stress can cause differential modulation of the unfolded protein response (UPR, which includes the inositol-requiring enzyme 1 (IRE-1, activating transcription factor 6 (ATF6 and PKR-like ER kinase (PERK pathways, these were individually tested in 3a-expressing cells. Only the PERK pathway was found to be activated in 3a-expressing cells based on (1 increased phosphorylation of eukaryotic initiation factor 2 alpha (eIF2alpha and inhibitory effects of a dominant-negative form of eIF2alpha on GRP78 promoter activity, (2 increased translation of activating transcription factor 4 (ATF4 mRNA, and (3 ATF4-dependent activation of the C/EBP homologous protein (CHOP gene promoter. Activation of PERK affects innate immunity by suppression of type 1 interferon (IFN signaling. The 3a protein was found to induce serine phosphorylation within the IFN alpha-receptor subunit 1 (IFNAR1 degradation motif and to increase IFNAR1 ubiquitination. Confocal microscopic analysis showed increased translocation of IFNAR1 into the lysosomal compartment and flow cytometry showed reduced levels of IFNAR1 in 3a-expressing cells. These results provide further mechanistic details of the pro-apoptotic effects of the SARS-CoV 3a protein, and suggest a potential role for it in attenuating interferon responses and innate immunity.

SARS-coronavirus spike S2 domain flanked by cysteine residues C822 and C833 is important for activation of membrane fusion

International Nuclear Information System (INIS)

Madu, Ikenna G.; Belouzard, Sandrine; Whittaker, Gary R.

2009-01-01

The S2 domain of the coronavirus spike (S) protein is known to be responsible for mediating membrane fusion. In addition to a well-recognized cleavage site at the S1-S2 boundary, a second proteolytic cleavage site has been identified in the severe acute respiratory syndrome coronavirus (SARS-CoV) S2 domain (R797). C-terminal to this S2 cleavage site is a conserved region flanked by cysteine residues C822 and C833. Here, we investigated the importance of this well conserved region for SARS-CoV S-mediated fusion activation. We show that the residues between C822-C833 are well conserved across all coronaviruses. Mutagenic analysis of SARS-CoV S, combined with cell-cell fusion and pseudotyped virion infectivity assays, showed a critical role for the core-conserved residues C822, D830, L831, and C833. Based on available predictive models, we propose that the conserved domain flanked by cysteines 822 and 833 forms a loop structure that interacts with components of the SARS-CoV S trimer to control the activation of membrane fusion.

Crystal structure of NL63 respiratory coronavirus receptor-binding domain complexed with its human receptor

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Wu, Kailang; Li, Weikai; Peng, Guiqing; Li, Fang; (Harvard-Med); (UMM-MED)

2010-03-04

NL63 coronavirus (NL63-CoV), a prevalent human respiratory virus, is the only group I coronavirus known to use angiotensin-converting enzyme 2 (ACE2) as its receptor. Incidentally, ACE2 is also used by group II SARS coronavirus (SARS-CoV). We investigated how different groups of coronaviruses recognize the same receptor, whereas homologous group I coronaviruses recognize different receptors. We determined the crystal structure of NL63-CoV spike protein receptor-binding domain (RBD) complexed with human ACE2. NL63-CoV RBD has a novel {beta}-sandwich core structure consisting of 2 layers of {beta}-sheets, presenting 3 discontinuous receptor-binding motifs (RBMs) to bind ACE2. NL63-CoV and SARS-CoV have no structural homology in RBD cores or RBMs; yet the 2 viruses recognize common ACE2 regions, largely because of a 'virus-binding hotspot' on ACE2. Among group I coronaviruses, RBD cores are conserved but RBMs are variable, explaining how these viruses recognize different receptors. These results provide a structural basis for understanding viral evolution and virus-receptor interactions.

Bistatic sAR data processing algorithms

CERN Document Server

Qiu, Xiaolan; Hu, Donghui

2013-01-01

Synthetic Aperture Radar (SAR) is critical for remote sensing. It works day and night, in good weather or bad. Bistatic SAR is a new kind of SAR system, where the transmitter and receiver are placed on two separate platforms. Bistatic SAR is one of the most important trends in SAR development, as the technology renders SAR more flexible and safer when used in military environments. Imaging is one of the most difficult and important aspects of bistatic SAR data processing. Although traditional SAR signal processing is fully developed, bistatic SAR has a more complex system structure, so sign

Analysis of intraviral protein-protein interactions of the SARS coronavirus ORFeome.

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Albrecht von Brunn

2007-05-01

Full Text Available The severe acute respiratory syndrome coronavirus (SARS-CoV genome is predicted to encode 14 functional open reading frames, leading to the expression of up to 30 structural and non-structural protein products. The functions of a large number of viral ORFs are poorly understood or unknown. In order to gain more insight into functions and modes of action and interaction of the different proteins, we cloned the viral ORFeome and performed a genome-wide analysis for intraviral protein interactions and for intracellular localization. 900 pairwise interactions were tested by yeast-two-hybrid matrix analysis, and more than 65 positive non-redundant interactions, including six self interactions, were identified. About 38% of interactions were subsequently confirmed by CoIP in mammalian cells. Nsp2, nsp8 and ORF9b showed a wide range of interactions with other viral proteins. Nsp8 interacts with replicase proteins nsp2, nsp5, nsp6, nsp7, nsp8, nsp9, nsp12, nsp13 and nsp14, indicating a crucial role as a major player within the replication complex machinery. It was shown by others that nsp8 is essential for viral replication in vitro, whereas nsp2 is not. We show that also accessory protein ORF9b does not play a pivotal role for viral replication, as it can be deleted from the virus displaying normal plaque sizes and growth characteristics in Vero cells. However, it can be expected to be important for the virus-host interplay and for pathogenicity, due to its large number of interactions, by enhancing the global stability of the SARS proteome network, or play some unrealized role in regulating protein-protein interactions. The interactions identified provide valuable material for future studies.

Middle East Respiratory Syndrome Coronavirus Nonstructural Protein 16 Is Necessary for Interferon Resistance and Viral Pathogenesis

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Menachery, Vineet D.; Gralinski, Lisa E.; Mitchell, Hugh D.; Dinnon, Kenneth H.; Leist, Sarah R.; Yount, Boyd L.; Graham, Rachel L.; McAnarney, Eileen T.; Stratton, Kelly G.; Cockrell, Adam S.; Debbink, Kari; Sims, Amy C.; Waters, Katrina M.; Baric, Ralph S.; Fernandez-Sesma, Ana

2017-11-15

Coronaviruses (CoVs) encode a mixture of highly conserved and novel genes, as well as genetic elements necessary for infection and pathogenesis, raising the possibility of common targets for attenuation and therapeutic design. In this study, we focused on highly conserved nonstructural protein 16 (NSP16), a viral 2'O-methyltransferase (2'O-MTase) that encodes critical functions in immune modulation and infection. Using reverse genetics, we disrupted a key motif in the conserved KDKE motif of Middle East respiratory syndrome CoV (MERS-CoV) NSP16 (D130A) and evaluated the effect on viral infection and pathogenesis. While the absence of 2'O-MTase activity had only a marginal impact on propagation and replication in Vero cells, dNSP16 mutant MERS-CoV demonstrated significant attenuation relative to the control both in primary human airway cell cultures andin vivo. Further examination indicated that dNSP16 mutant MERS-CoV had a type I interferon (IFN)-based attenuation and was partially restored in the absence of molecules of IFN-induced proteins with tetratricopeptide repeats. Importantly, the robust attenuation permitted the use of dNSP16 mutant MERS-CoV as a live attenuated vaccine platform protecting from a challenge with a mouse-adapted MERS-CoV strain. These studies demonstrate the importance of the conserved 2'O-MTase activity for CoV pathogenesis and highlight NSP16 as a conserved universal target for rapid live attenuated vaccine design in an expanding CoV outbreak setting.

IMPORTANCECoronavirus (CoV) emergence in both humans and livestock represents a significant threat to global public health, as evidenced by the sudden emergence of severe acute respiratory syndrome CoV (SARS-CoV), MERS-CoV, porcine epidemic diarrhea virus, and swine delta CoV in the 21st century. These studies describe an approach that

Binding of the GTPase Sar1 to a Lipid Membrane Monolayer: Insertion and Orientation Studied by Infrared Reflection–Absorption Spectroscopy

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Christian Schwieger

2017-11-01

Full Text Available Membrane-interacting proteins are polyphilic polymers that engage in dynamic protein–protein and protein–lipid interactions while undergoing changes in conformation, orientation and binding interfaces. Predicting the sites of interactions between such polypeptides and phospholipid membranes is still a challenge. One example is the small eukaryotic GTPase Sar1, which functions in phospholipid bilayer remodeling and vesicle formation as part of the multimeric coat protein complex (COPII. The membrane interaction of Sar1 is strongly dependent on its N-terminal 23 amino acids. By monolayer adsorption experiments and infrared reflection-absorption spectroscopy (IRRAS, we elucidate the role of lipids in inducing the amphipathicity of this N-terminal stretch, which inserts into the monolayer as an amphipathic helix (AH. The AH inserting angle is determined and is consistent with the philicities and spatial distribution of the amino acid monomers. Using an advanced method of IRRAS data evaluation, the orientation of Sar1 with respect to the lipid layer prior to the recruitment of further COPII proteins is determined. The result indicates that only a slight reorientation of the membrane-bound Sar1 is needed to allow coat assembly. The time-course of the IRRAS analysis corroborates a role of slow GTP hydrolysis in Sar1 desorption from the membrane.

Human Coronavirus HKU1 Spike Protein Uses O-Acetylated Sialic Acid as an Attachment Receptor Determinant and Employs Hemagglutinin-Esterase Protein as a Receptor-Destroying Enzyme.

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Huang, Xingchuan; Dong, Wenjuan; Milewska, Aleksandra; Golda, Anna; Qi, Yonghe; Zhu, Quan K; Marasco, Wayne A; Baric, Ralph S; Sims, Amy C; Pyrc, Krzysztof; Li, Wenhui; Sui, Jianhua

2015-07-01

Human coronavirus (hCoV) HKU1 is one of six hCoVs identified to date and the only one with an unidentified cellular receptor. hCoV-HKU1 encodes a hemagglutinin-esterase (HE) protein that is unique to the group a betacoronaviruses (group 2a). The function of HKU1-HE remains largely undetermined. In this study, we examined binding of the S1 domain of hCoV-HKU1 spike to a panel of cells and found that the S1 could specifically bind on the cell surface of a human rhabdomyosarcoma cell line, RD. Pretreatment of RD cells with neuraminidase (NA) and trypsin greatly reduced the binding, suggesting that the binding was mediated by sialic acids on glycoproteins. However, unlike other group 2a CoVs, e.g., hCoV-OC43, for which 9-O-acetylated sialic acid (9-O-Ac-Sia) serves as a receptor determinant, HKU1-S1 bound with neither 9-O-Ac-Sia-containing glycoprotein(s) nor rat and mouse erythrocytes. Nonetheless, the HKU1-HE was similar to OC43-HE, also possessed sialate-O-acetylesterase activity, and acted as a receptor-destroying enzyme (RDE) capable of eliminating the binding of HKU1-S1 to RD cells, whereas the O-acetylesterase-inactive HKU1-HE mutant lost this capacity. Using primary human ciliated airway epithelial (HAE) cell cultures, the only in vitro replication model for hCoV-HKU1 infection, we confirmed that pretreatment of HAE cells with HE but not the enzymatically inactive mutant blocked hCoV-HKU1 infection. These results demonstrate that hCoV-HKU1 exploits O-Ac-Sia as a cellular attachment receptor determinant to initiate the infection of host cells and that its HE protein possesses the corresponding sialate-O-acetylesterase RDE activity. Human coronaviruses (hCoV) are important human respiratory pathogens. Among the six hCoVs identified to date, only hCoV-HKU1 has no defined cellular receptor. It is also unclear whether hemagglutinin-esterase (HE) protein plays a role in viral entry. In this study, we found that, similarly to other members of the group 2a CoVs, sialic

Distinct patterns of IFITM-mediated restriction of filoviruses, SARS coronavirus, and influenza A virus.

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I-Chueh Huang

2011-01-01

Full Text Available Interferon-inducible transmembrane proteins 1, 2, and 3 (IFITM1, 2, and 3 are recently identified viral restriction factors that inhibit infection mediated by the influenza A virus (IAV hemagglutinin (HA protein. Here we show that IFITM proteins restricted infection mediated by the entry glycoproteins (GP(1,2 of Marburg and Ebola filoviruses (MARV, EBOV. Consistent with these observations, interferon-β specifically restricted filovirus and IAV entry processes. IFITM proteins also inhibited replication of infectious MARV and EBOV. We observed distinct patterns of IFITM-mediated restriction: compared with IAV, the entry processes of MARV and EBOV were less restricted by IFITM3, but more restricted by IFITM1. Moreover, murine Ifitm5 and 6 did not restrict IAV, but efficiently inhibited filovirus entry. We further demonstrate that replication of infectious SARS coronavirus (SARS-CoV and entry mediated by the SARS-CoV spike (S protein are restricted by IFITM proteins. The profile of IFITM-mediated restriction of SARS-CoV was more similar to that of filoviruses than to IAV. Trypsin treatment of receptor-associated SARS-CoV pseudovirions, which bypasses their dependence on lysosomal cathepsin L, also bypassed IFITM-mediated restriction. However, IFITM proteins did not reduce cellular cathepsin activity or limit access of virions to acidic intracellular compartments. Our data indicate that IFITM-mediated restriction is localized to a late stage in the endocytic pathway. They further show that IFITM proteins differentially restrict the entry of a broad range of enveloped viruses, and modulate cellular tropism independently of viral receptor expression.

Generation of human antibody fragments recognizing distinct epitopes of the nucleocapsid (N SARS-CoV protein using a phage display approach

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Grasso Felicia

2005-09-01

Full Text Available Abstract Background Severe acute respiratory syndrome (SARS-CoV is a newly emerging virus that causes SARS with high mortality rate in infected people. Successful control of the global SARS epidemic will require rapid and sensitive diagnostic tests to monitor its spread, as well as, the development of vaccines and new antiviral compounds including neutralizing antibodies that effectively prevent or treat this disease. Methods The human synthetic single-chain fragment variable (scFv ETH-2 phage antibody library was used for the isolation of scFvs against the nucleocapsid (N protein of SARS-CoV using a bio panning-based strategy. The selected scFvs were characterized under genetics-molecular aspects and for SARS-CoV N protein detection in ELISA, western blotting and immunocytochemistry. Results Human scFv antibodies to N protein of SARS-CoV can be easily isolated by selecting the ETH-2 phage library on immunotubes coated with antigen. These in vitro selected human scFvs specifically recognize in ELISA and western blotting studies distinct epitopes in N protein domains and detect in immunohistochemistry investigations SARS-CoV particles in infected Vero cells. Conclusion The human scFv antibodies isolated and described in this study represent useful reagents for rapid detection of N SARS-CoV protein and SARS virus particles in infected target cells.

Epitope mapping and biological function analysis of antibodies produced by immunization of mice with an inactivated Chinese isolate of severe acute respiratory syndrome-associated coronavirus (SARS-CoV)

International Nuclear Information System (INIS)

Chou, Te-hui W.; Wang, Shixia; Sakhatskyy, Pavlo V.; Mboudoudjeck, Innocent; Lawrence, John M.; Huang Song; Coley, Scott; Yang Baoan; Li Jiaming; Zhu Qingyu; Lu Shan

2005-01-01

Inactivated severe acute respiratory syndrome-associated coronavirus (SARS-CoV) has been tested as a candidate vaccine against the re-emergence of SARS. In order to understand the efficacy and safety of this approach, it is important to know the antibody specificities generated with inactivated SARS-CoV. In the current study, a panel of twelve monoclonal antibodies (mAbs) was established by immunizing Balb/c mice with the inactivated BJ01 strain of SARS-CoV isolated from the lung tissue of a SARS-infected Chinese patient. These mAbs could recognize SARS-CoV-infected cells by immunofluorescence analysis (IFA). Seven of them were mapped to the specific segments of recombinant spike (S) protein: six on S1 subunit (aa 12-798) and one on S2 subunit (aa 797-1192). High neutralizing titers against SARS-CoV were detected with two mAbs (1A5 and 2C5) targeting at a subdomain of S protein (aa 310-535), consistent with the previous report that this segment of S protein contains the major neutralizing domain. Some of these S-specific mAbs were able to recognize cleaved products of S protein in SARS-CoV-infected Vero E6 cells. None of the remaining five mAbs could recognize either of the recombinant S, N, M, or E antigens by ELISA. This study demonstrated that the inactivated SARS-CoV was able to preserve the immunogenicity of S protein including its major neutralizing domain. The relative ease with which these mAbs were generated against SARS-CoV virions further supports that subunit vaccination with S constructs may also be able to protect animals and perhaps humans. It is somewhat unexpected that no N-specific mAbs were identified albeit anti-N IgG was easily identified in SARS-CoV-infected patients. The availability of this panel of mAbs also provided potentially useful agents with applications in therapy, diagnosis, and basic research of SARS-CoV

[Expression, purification and antibody preparation of recombinat SARS-CoV X5 protein].

Science.gov (United States)

Wang, Li-Na; Kong, Jian-Qiang; Zhu, Ping; Du, Guan-Hua; Wang, Wei; Cheng, Ke-Di

2008-11-01

X5 protein is one of the putative unknown proteins of SARS-CoV. The recombinant protein has been successfully expressed in E. coli in the form of insoluble inclusion body. The inclusion body was dissolved in high concentration of urea. Affinity Chromatography was preformed to purify the denatured protein, and then the product was refolded in a series of gradient solutions of urea. The purified protein was obtained with the purity of > 95% and the yield of 93.3 mg x L(-1). Polyclonal antibody of this protein was obtained, and Western blotting assay indicated that the X5 protein has the strong property of antigen. Sixty-eight percent of the recombinant protein sequence was confirmed by LC-ESI-MS/MS analysis.

Thioredoxin 1 regulation of protein S-desulfhydration

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Youngjun Ju

2016-03-01

Full Text Available The importance of H2S in biology and medicine has been widely recognized in recent years, and protein S-sulfhydration is proposed to mediate the direct actions of H2S bioactivity in the body. Thioredoxin 1 (Trx1 is an important reducing enzyme that cleaves disulfides in proteins and acts as an S-denitrosylase. The regulation of Trx1 on protein S-sulfhydration is unclear. Here we showed that Trx1 facilitates protein S-desulfhydration. Overexpression of Trx1 attenuated the basal level and H2S-induced protein S-sulfhydration by direct interaction with S-sulfhydrated proteins, i.e., glyceraldehyde 3-phosphate dehydrogenase and pyruvate carboxylase. In contrast, knockdown of Trx1 mRNA expression by short interfering RNA or blockage of Trx1 redox activity with PX12 or 2,4-dinitrochlorobenzene enhanced protein S-sulfhydration. Mutation of cysteine-32 but not cysteine-35 in the Trp–Cys32–Gly–Pro–Cys35 motif eliminated the binding of Trx1 with S-sulfhydrated proteins and abolished the S-desulfhydrating effect of Trx1. All these data suggest that Trx1 acts as an S-desulfhydrase.

Rapid detection of MERS coronavirus-like viruses in bats: pote1ntial for tracking MERS coronavirus transmission and animal origin.

Science.gov (United States)

Woo, Patrick C Y; Lau, Susanna K P; Chen, Yixin; Wong, Emily Y M; Chan, Kwok-Hung; Chen, Honglin; Zhang, Libiao; Xia, Ningshao; Yuen, Kwok-Yung

2018-03-07

Recently, we developed a monoclonal antibody-based rapid nucleocapsid protein detection assay for diagnosis of MERS coronavirus (MERS-CoV) in humans and dromedary camels. In this study, we examined the usefulness of this assay to detect other lineage C betacoronaviruses closely related to MERS-CoV in bats. The rapid MERS-CoV nucleocapsid protein detection assay was tested positive in 24 (88.9%) of 27 Tylonycteris bat CoV HKU4 (Ty-BatCoV-HKU4) RNA-positive alimentary samples of Tylonycteris pachypus and 4 (19.0%) of 21 Pipistrellus bat CoV HKU5 (Pi-BatCoV-HKU5) RNA-positive alimentary samples of Pipistrellus abramus. There was significantly more Ty-BatCoV-HKU4 RNA-positive alimentary samples than Pi-BatCoV-HKU5 RNA-positive alimentary samples that were tested positive by the rapid MERS-CoV nucleocapsid protein detection assay (P < 0.001 by Chi-square test). The rapid assay was tested negative in all 51 alimentary samples RNA-positive for alphacoronaviruses (Rhinolophus bat CoV HKU2, Myotis bat CoV HKU6, Miniopterus bat CoV HKU8 and Hipposideros batCoV HKU10) and 32 alimentary samples positive for lineage B (SARS-related Rhinolophus bat CoV HKU3) and lineage D (Rousettus bat CoV HKU9) betacoronaviruses. No significant difference was observed between the viral loads of Ty-BatCoV-HKU4/Pi-BatCoV-HKU5 RNA-positive alimentary samples that were tested positive and negative by the rapid test (Mann-Witney U test). The rapid MERS-CoV nucleocapsid protein detection assay is able to rapidly detect lineage C betacoronaviruses in bats. It detected significantly more Ty-BatCoV-HKU4 than Pi-BatCoV-HKU5 because MERS-CoV is more closely related to Ty-BatCoV-HKU4 than Pi-BatCoV-HKU5. This assay will facilitate rapid on-site mass screening of animal samples for ancestors of MERS-CoV and tracking transmission in the related bat species.

Evaluation of serologic and antigenic relationships between middle eastern respiratory syndrome coronavirus and other coronaviruses to develop vaccine platforms for the rapid response to emerging coronaviruses.

Science.gov (United States)

Agnihothram, Sudhakar; Gopal, Robin; Yount, Boyd L; Donaldson, Eric F; Menachery, Vineet D; Graham, Rachel L; Scobey, Trevor D; Gralinski, Lisa E; Denison, Mark R; Zambon, Maria; Baric, Ralph S

2014-04-01

Middle East respiratory syndrome coronavirus (MERS-CoV) emerged in 2012, causing severe acute respiratory disease and pneumonia, with 44% mortality among 136 cases to date. Design of vaccines to limit the virus spread or diagnostic tests to track newly emerging strains requires knowledge of antigenic and serologic relationships between MERS-CoV and other CoVs.  Using synthetic genomics and Venezuelan equine encephalitis virus replicons (VRPs) expressing spike and nucleocapsid proteins from MERS-CoV and other human and bat CoVs, we characterize the antigenic responses (using Western blot and enzyme-linked immunosorbent assay) and serologic responses (using neutralization assays) against 2 MERS-CoV isolates in comparison with those of other human and bat CoVs.  Serologic and neutralization responses against the spike glycoprotein were primarily strain specific, with a very low level of cross-reactivity within or across subgroups. CoV N proteins within but not across subgroups share cross-reactive epitopes with MERS-CoV isolates. Our findings were validated using a convalescent-phase serum specimen from a patient infected with MERS-CoV (NA 01) and human antiserum against SARS-CoV, human CoV NL63, and human CoV OC43.  Vaccine design for emerging CoVs should involve chimeric spike protein containing neutralizing epitopes from multiple virus strains across subgroups to reduce immune pathology, and a diagnostic platform should include a panel of nucleocapsid and spike proteins from phylogenetically distinct CoVs.

Boosted expression of the SARS-CoV nucleocapsid protein in tobacco and its immunogenicity in mice.

Science.gov (United States)

Zheng, Nuoyan; Xia, Ran; Yang, Cuiping; Yin, Bojiao; Li, Yin; Duan, Chengguo; Liang, Liming; Guo, Huishan; Xie, Qi

2009-08-06

Vaccines produced in plant systems are safe and economical; however, the extensive application of plant-based vaccines is mainly hindered by low expression levels of heterologous proteins in plant systems. Here, we demonstrated that the post-transcriptional gene silencing suppressor p19 protein from tomato bushy stunt virus substantially enhanced the transient expression of recombinant SARS-CoV nucleocapsid (rN) protein in Nicotiana benthamiana. The rN protein in the agrobacteria-infiltrated plant leaf accumulated up to a concentration of 79 microg per g fresh leaf weight at 3 days post infiltration. BALB/c mice were intraperitoneally vaccinated with pre-treated plant extract emulsified in Freund's adjuvant. The rN protein-specific IgG in the mouse sera attained a titer about 1:1,800 following three doses of immunization, which suggested effective B-cell maturation and differentiation in mice. Antibodies of the subclasses IgG1 and IgG2a were abundantly present in the mouse sera. During vaccination of rN protein, the expression of IFN-gamma and IL-10 was evidently up-regulated in splenocytes at different time points, while the expression of IL-2 and IL-4 was not. Up to now, this is the first study that plant-expressed recombinant SARS-CoV N protein can induce strong humoral and cellular responses in mice.

Ocean Wave Parameters Retrieval from Sentinel-1 SAR Imagery

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Weizeng Shao

2016-08-01

Full Text Available In this paper, a semi-empirical algorithm for significant wave height (Hs and mean wave period (Tmw retrieval from C-band VV-polarization Sentinel-1 synthetic aperture radar (SAR imagery is presented. We develop a semi-empirical function for Hs retrieval, which describes the relation between Hs and cutoff wavelength, radar incidence angle, and wave propagation direction relative to radar look direction. Additionally, Tmw can be also calculated through Hs and cutoff wavelength by using another empirical function. We collected 106 C-band stripmap mode Sentinel-1 SAR images in VV-polarization and wave measurements from in situ buoys. There are a total of 150 matchup points. We used 93 matchups to tune the coefficients of the semi-empirical algorithm and the rest 57 matchups for validation. The comparison shows a 0.69 m root mean square error (RMSE of Hs with a 18.6% of scatter index (SI and 1.98 s RMSE of Tmw with a 24.8% of SI. Results indicate that the algorithm is suitable for wave parameters retrieval from Sentinel-1 SAR data.

Evidence supporting a zoonotic origin of human coronavirus strain NL63.

Science.gov (United States)

Huynh, Jeremy; Li, Shimena; Yount, Boyd; Smith, Alexander; Sturges, Leslie; Olsen, John C; Nagel, Juliet; Johnson, Joshua B; Agnihothram, Sudhakar; Gates, J Edward; Frieman, Matthew B; Baric, Ralph S; Donaldson, Eric F

2012-12-01

The relationship between bats and coronaviruses (CoVs) has received considerable attention since the severe acute respiratory syndrome (SARS)-like CoV was identified in the Chinese horseshoe bat (Rhinolophidae) in 2005. Since then, several bats throughout the world have been shown to shed CoV sequences, and presumably CoVs, in the feces; however, no bat CoVs have been isolated from nature. Moreover, there are very few bat cell lines or reagents available for investigating CoV replication in bat cells or for isolating bat CoVs adapted to specific bat species. Here, we show by molecular clock analysis that alphacoronavirus (α-CoV) sequences derived from the North American tricolored bat (Perimyotis subflavus) are predicted to share common ancestry with human CoV (HCoV)-NL63, with the most recent common ancestor between these viruses occurring approximately 563 to 822 years ago. Further, we developed immortalized bat cell lines from the lungs of this bat species to determine if these cells were capable of supporting infection with HCoVs. While SARS-CoV, mouse-adapted SARS-CoV (MA15), and chimeric SARS-CoVs bearing the spike genes of early human strains replicated inefficiently, HCoV-NL63 replicated for multiple passages in the immortalized lung cells from this bat species. These observations support the hypothesis that human CoVs are capable of establishing zoonotic-reverse zoonotic transmission cycles that may allow some CoVs to readily circulate and exchange genetic material between strains found in bats and other mammals, including humans.

The staphylococcal accessory regulator, SarA, is an RNA-binding protein that modulates the mRNA turnover properties of late-exponential and stationary phase Staphylococcus aureus cells

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John M Morrison

2012-03-01

Full Text Available The modulation of mRNA turnover is gaining recognition as a mechanism by which Staphylococcus aureus regulates gene expression, but the factors that orchestrate alterations in transcript degradation are poorly understood. In that regard, we previously found that 138 mRNA species, including the virulence factors protein A (spa and collagen binding protein (cna, are stabilized in a sarA-dependent manner during exponential phase growth, suggesting that SarA protein may directly or indirectly effect the RNA turnover properties of these transcripts. Herein, we expanded our characterization of the effects of sarA on mRNA turnover during late exponential and stationary phases of growth. Results revealed that the locus affects the RNA degradation properties of cells during both growth phases. Further, using gel mobility shift assays and RIP-ChIP, it was found that SarA protein is capable of binding mRNA species that it stabilizes both in vitro and within bacterial cells. Taken together, these results suggest that SarA post-transcriptionally regulates S. aureus gene expression in a manner that involves binding to and consequently altering the mRNA turnover properties of target transcripts.

Molecular dynamics of Middle East Respiratory Syndrome Coronavirus (MERS CoV) fusion heptad repeat trimers

KAUST Repository

Kandeel, Mahmoud; Al-Taher, Abdulla; Li, Huifang; Schwingenschlö gl, Udo; Alnazawi, Mohamed

2018-01-01

Structural studies related to Middle East Respiratory Syndrome Coronavirus (MERS CoV) infection process are so limited. In this study, molecular dynamics (MD) simulation was carried out to unravel changes in the MERS CoV heptad repeat domains (HRs

Superior Cycle Stability Performance of Quasi-Cuboidal CoV2O6 Microstructures as Electrode Material for Supercapacitors.

Science.gov (United States)

Wang, Yucheng; Chai, Hui; Dong, Hong; Xu, Jiayu; Jia, Dianzeng; Zhou, Wanyong

2016-10-12

In this study, a rapid, facile, and environment-friendly microwave-assisted method followed by annealing for synthesizing the quasi-cuboidal CoV 2 O 6 is developed. The as-prepared samples manifest high supercapacitor properties with a specific capacitance of 223 F g -1 , good rate capability, and superior cycle stability, retaining 123.3% capacitance when the number of cycles reaches 15,000 after determined by electrochemical tests. More importantly, the quasi-cuboidal CoV 2 O 6 for the first time is introduced into the supercapacitor as a kind of electrode material. The superior electrochemical performance of the quasi-cuboidal CoV 2 O 6 will render the metal vanadium oxides as new and attractive active material for promising application in supercapacitors.

Airborne S-Band SAR for Forest Biophysical Retrieval in Temperate Mixed Forests of the UK

Directory of Open Access Journals (Sweden)

Ramesh K. Ningthoujam

2016-07-01

Full Text Available Radar backscatter from forest canopies is related to forest cover, canopy structure and aboveground biomass (AGB. The S-band frequency (3.1–3.3 GHz lies between the longer L-band (1–2 GHz and the shorter C-band (5–6 GHz and has been insufficiently studied for forest applications due to limited data availability. In anticipation of the British built NovaSAR-S satellite mission, this study evaluates the benefits of polarimetric S-band SAR for forest biophysical properties. To understand the scattering mechanisms in forest canopies at S-band the Michigan Microwave Canopy Scattering (MIMICS-I radiative transfer model was used. S-band backscatter was found to have high sensitivity to the forest canopy characteristics across all polarisations and incidence angles. This sensitivity originates from ground/trunk interaction as the dominant scattering mechanism related to broadleaved species for co-polarised mode and specific incidence angles. The study was carried out in the temperate mixed forest at Savernake Forest and Wytham Woods in southern England, where airborne S-band SAR imagery and field data are available from the recent AirSAR campaign. Field data from the test sites revealed wide ranges of forest parameters, including average canopy height (6–23 m, diameter at breast-height (7–42 cm, basal area (0.2–56 m2/ha, stem density (20–350 trees/ha and woody biomass density (31–520 t/ha. S-band backscatter-biomass relationships suggest increasing backscatter sensitivity to forest AGB with least error between 90.63 and 99.39 t/ha and coefficient of determination (r2 between 0.42 and 0.47 for the co-polarised channel at 0.25 ha resolution. The conclusion is that S-band SAR data such as from NovaSAR-S is suitable for monitoring forest aboveground biomass less than 100 t/ha at 25 m resolution in low to medium incidence angle range.

Silencing of SARS-CoV spike gene by small interfering RNA in HEK 293T cells

International Nuclear Information System (INIS)

Qin Zhaoling; Zhao Ping; Zhang Xiaolian; Yu Jianguo; Cao Mingmei; Zhao Lanjuan; Luan Jie; Qi Zhongtian

2004-01-01

Two candidate small interfering RNAs (siRNAs) corresponding to severe acute respiratory syndrome-associated coronavirus (SARS-CoV) spike gene were designed and in vitro transcribed to explore the possibility of silencing SARS-CoV S gene. The plasmid pEGFP-optS, which contains the codon-optimized SARS-CoV S gene and expresses spike-EGFP fusion protein (S-EGFP) as silencing target and expressing reporter, was transfected with siRNAs into HEK 293T cells. At various time points of posttransfection, the levels of S-EGFP expression and amounts of spike mRNA transcript were detected by fluorescence microscopy, flow cytometry, Western blot, and real-time quantitative PCR, respectively. The results showed that the cells transfected with pEGFP-optS expressed S-EGFP fusion protein at a higher level compared with those transfected with pEGFP-S, which contains wildtype SARS-CoV spike gene sequence. The green fluorescence, mean fluorescence intensity, and SARS-CoV S RNA transcripts were found significantly reduced, and the expression of SARS-CoV S glycoprotein was strongly inhibited in those cells co-transfected with either EGFP- or S-specific siRNAs. Our findings demonstrated that the S-specific siRNAs used in this study were able to specifically and effectively inhibit SARS-CoV S glycoprotein expression in cultured cells through blocking the accumulation of S mRNA, which may provide an approach for studies on the functions of SARS-CoV S gene and development of novel prophylactic or therapeutic agents for SARS-CoV

Modeling the Structure of SARS 3a Transmembrane Protein Using a ...

Indian Academy of Sciences (India)

Modeling the structure of SARS 3a Transmembrane protein using a ... for the implicit membrane molecular dynamics (MD) simulations. ... The coordinates during the simulation were saved every 500 steps, and were used for analysis. ... the pair list for calculation of nonbonded interactions being updated after every 10 steps.

Molecular dynamics simulations of membrane deformation induced by amphiphilic helices of Epsin, Sar1p, and Arf1

Science.gov (United States)

Li, Zhen-Lu

2018-03-01

The N-terminal amphiphilic helices of proteins Epsin, Sar1p, and Arf1 play a critical role in initiating membrane deformation. The interactions of these amphiphilic helices with the lipid membranes are investigated in this study by combining the all-atom and coarse-grained simulations. In the all-atom simulations, the amphiphilic helices of Epsin and Sar1p are found to have a shallower insertion depth into the membrane than the amphiphilic helix of Arf1, but remarkably, the amphiphilic helices of Epsin and Sar1p induce higher asymmetry in the lipid packing between the two monolayers of the membrane. The insertion depth of amphiphilic helix into the membrane is determined not only by the overall hydrophobicity but also by the specific distributions of polar and non-polar residues along the helix. To directly compare their ability to deform the membrane, the coarse-grained simulations are performed to investigate the membrane deformation under the insertion of multiple helices. Project supported by the National Natural Science Foundation of China (Grant Nos. 91427302 and 11474155).

Bryan Mound InSAR Analysis U.S. Strategic petroleum Reserve.

Energy Technology Data Exchange (ETDEWEB)

Lord, Anna C. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2017-06-01

The U.S. Strategic Petroleum Reserve (SPR) is a stockpile of emergency crude oil to be tapped into if a disruption in the nation's oil supply occurs. The SPR is comprised of four salt dome sites. Subsidence surveys have been conducted either annually or biennially at all four sites over the life of the program. Monitoring of surface behavior is a first line defense to detecting possible subsurface cavern integrity issues. Over the life of the Bryan Mound site, subsidence rates over abandoned Cavern 3 have continuously been the highest at the site. In an effort to try and understand the subsurface dynamics, specifically over Bryan Mound Cavern 3, historic interferometric synthetic aperture radar (InSAR) data was acquired and processed by TRE Altamira. InSAR involves the processing of multiple satellite synthetic aperture radar scenes acquired across the same location of the Earth's surface at different times to map surface deformation. The analysis of the data has the ability to detect millimeters of motion spanning days, months, year and decades, across specific sites. The intent in regards to the Bryan Mound site was (1) to confirm the higher subsidence rates recorded over abandoned Cavern 3 indicated by land survey and (2) understand the regional surface behavior. This report describes the InSAR analysis results, how those results compare to the historical collection of land survey data, and what additional information the data has provided towards understanding the response recorded at the surface.

Understanding the Future Market for NovaSAR-S Flood Mapping Products Using Data Mining and Simulation

Science.gov (United States)

Lavender, Samantha; Haria, Kajal; Cooksley, Geraint; Farman, Alex; Beaton, Thomas

2016-08-01

The aim was to understand a future market for NovaSAR-S, with a particular focus on flood mapping, through developing a simple Synthetic Aperture Radar (SAR) simulator that can be used in advance of NovaSAR-S data becoming available.The return signal was determined from a combination of a terrain or elevation model, Envisat S-Band Radar Altimeter (RA)-2, Landsat and CORINE land cover information; allowing for a simulation of a SAR image that's influenced by both the geometry and surface type. The test sites correspond to data from the 2014 AirSAR campaign, and validation is performed by using AirSAR together with Envisat Advanced (ASAR) and Advanced Land Observing Satellite "Daichi" (ALOS) Phased Array type L-Band Synthetic Aperture Radar (PALSAR) data.It's envisaged that the resulting simulated data, and the simulator, will not only aid early understanding of NovaSAR-S, but will also aid the development of flood mapping applications.

A 100 MS/s 9 bit 0.43 mW SAR ADC with custom capacitor array

Science.gov (United States)

Jingjing, Wang; Zemin, Feng; Rongjin, Xu; Chixiao, Chen; Fan, Ye; Jun, Xu; Junyan, Ren

2016-05-01

A low power 9 bit 100 MS/s successive approximation register analog-to-digital converter (SAR ADC) with custom capacitor array is presented. A brand-new 3-D MOM unit capacitor is used as the basic capacitor cell of this capacitor array. The unit capacitor has a capacitance of 1 fF. Besides, the advanced capacitor array structure and switch mode decrease the power consumption a lot. To verify the effectiveness of this low power design, the 9 bit 100 MS/s SAR ADC is implemented in TSMC IP9M 65 nm LP CMOS technology. The measurement results demonstrate that this design achieves an effective number of bits (ENOB) of 7.4 bit, a signal-to-noise plus distortion ratio (SNDR) of 46.40 dB and a spurious-free dynamic range (SFDR) of 62.31 dB at 100 MS/s with 1 MHz input. The SAR ADC core occupies an area of 0.030 mm2 and consumes 0.43 mW under a supply voltage of 1.2 V. The figure of merit (FOM) of the SAR ADC achieves 23.75 fJ/conv. Project supported by the National High-Tech Research and Development Program of China (No. 2013AA014101).

Multitemporal monitoring of Karviná subsidence troughs using Sentinel-1 and TerraSAR-X interferometry

Czech Academy of Sciences Publication Activity Database

Lazecký, M.; Jiránková, E.; Kadlečík, Pavel

2017-01-01

Roč. 14, č. 1 (2017), s. 53-59 ISSN 1214-9705 Institutional support: RVO:67985891 Keywords : subsidence * SAR Interferometry * Sentinel-1 * TerraSAR-X * mining Subject RIV: DE - Earth Magnetism, Geodesy, Geography OBOR OECD: Physical geography Impact factor: 0.699, year: 2016 https://www.irsm.cas.cz/index_en.php?page=acta_detail_doi&id=187

hPEPT1 Affinity and Translocation of Selected Gln-Sar and Glu-Sar Dipeptide Derivatives

DEFF Research Database (Denmark)

Eriksson, A. H.; Elm, Peter L.; Begtrup, Mikael

2005-01-01

using 14C-labeled Gly-Sar. Translocation was measured as fluorescence ratios induced by the substrates using the fluorescent probe BCECF and an epifluorescence microscope setup. All compounds showed high affinity to hPEPT1, but only the amides l-Gln(N,N-dimethyl)-Sar and l-Gln(N-piperidinyl)-Sar were...... been suggested. However, these are not necessarily predictive of compounds that are actually translocated by hPEPT1. More information on affinity to and translocation via hPEPT1 of side-chain-modified dipeptides may be gained by conducting a study of selected dipeptide derivatives with variety in size...... translocated by hPEPT1. hPEPT1 is very susceptible to modifications of the N-terminal amino acid side chain of dipeptidomimetic substrates, in terms of achieving compounds with high affinity for the transporter. However, as affinity is not predictive of translocation, derivatization in this position must...

Structure and inhibition of the SARS coronavirus envelope protein ion channel.

Directory of Open Access Journals (Sweden)

Konstantin Pervushin

2009-07-01

Full Text Available The envelope (E protein from coronaviruses is a small polypeptide that contains at least one alpha-helical transmembrane domain. Absence, or inactivation, of E protein results in attenuated viruses, due to alterations in either virion morphology or tropism. Apart from its morphogenetic properties, protein E has been reported to have membrane permeabilizing activity. Further, the drug hexamethylene amiloride (HMA, but not amiloride, inhibited in vitro ion channel activity of some synthetic coronavirus E proteins, and also viral replication. We have previously shown for the coronavirus species responsible for severe acute respiratory syndrome (SARS-CoV that the transmembrane domain of E protein (ETM forms pentameric alpha-helical bundles that are likely responsible for the observed channel activity. Herein, using solution NMR in dodecylphosphatidylcholine micelles and energy minimization, we have obtained a model of this channel which features regular alpha-helices that form a pentameric left-handed parallel bundle. The drug HMA was found to bind inside the lumen of the channel, at both the C-terminal and the N-terminal openings, and, in contrast to amiloride, induced additional chemical shifts in ETM. Full length SARS-CoV E displayed channel activity when transiently expressed in human embryonic kidney 293 (HEK-293 cells in a whole-cell patch clamp set-up. This activity was significantly reduced by hexamethylene amiloride (HMA, but not by amiloride. The channel structure presented herein provides a possible rationale for inhibition, and a platform for future structure-based drug design of this potential pharmacological target.

In Situ Tagged nsp15 Reveals Interactions with Coronavirus Replication/Transcription Complex-Associated Proteins

Directory of Open Access Journals (Sweden)

Jeremiah Athmer

2017-01-01

Full Text Available Coronavirus (CoV replication and transcription are carried out in close proximity to restructured endoplasmic reticulum (ER membranes in replication/transcription complexes (RTC. Many of the CoV nonstructural proteins (nsps are required for RTC function; however, not all of their functions are known. nsp15 contains an endoribonuclease domain that is conserved in the CoV family. While the enzymatic activity and crystal structure of nsp15 are well defined, its role in replication remains elusive. nsp15 localizes to sites of RNA replication, but whether it acts independently or requires additional interactions for its function remains unknown. To begin to address these questions, we created an in situ tagged form of nsp15 using the prototypic CoV, mouse hepatitis virus (MHV. In MHV, nsp15 contains the genomic RNA packaging signal (P/S, a 95-bp RNA stem-loop structure that is not required for viral replication or nsp15 function. Utilizing this knowledge, we constructed an internal hemagglutinin (HA tag that replaced the P/S. We found that nsp15-HA was localized to discrete perinuclear puncta and strongly colocalized with nsp8 and nsp12, both well-defined members of the RTC, but not the membrane (M protein, involved in virus assembly. Finally, we found that nsp15 interacted with RTC-associated proteins nsp8 and nsp12 during infection, and this interaction was RNA independent. From this, we conclude that nsp15 localizes and interacts with CoV proteins in the RTC, suggesting it plays a direct or indirect role in virus replication. Furthermore, the use of in situ epitope tags could be used to determine novel nsp-nsp interactions in coronaviruses.

Coronavirus nucleocapsid proteins assemble constitutively in high molecular oligomers

NARCIS (Netherlands)

Cong, Yingying; Kriegenburg, Franziska; de Haan, Cornelis A. M.; Reggiori, Fulvio

2017-01-01

Coronaviruses (CoV) are enveloped viruses and rely on their nucleocapsid N protein to incorporate the positive-stranded genomic RNA into the virions. CoV N proteins form oligomers but the mechanism and relevance underlying their multimerization remain to be fully understood. Using in vitro pull-down

MREG V1.1 : a multi-scale image registration algorithm for SAR applications.

Energy Technology Data Exchange (ETDEWEB)

Eichel, Paul H.

2013-08-01

MREG V1.1 is the sixth generation SAR image registration algorithm developed by the Signal Processing&Technology Department for Synthetic Aperture Radar applications. Like its predecessor algorithm REGI, it employs a powerful iterative multi-scale paradigm to achieve the competing goals of sub-pixel registration accuracy and the ability to handle large initial offsets. Since it is not model based, it allows for high fidelity tracking of spatially varying terrain-induced misregistration. Since it does not rely on image domain phase, it is equally adept at coherent and noncoherent image registration. This document provides a brief history of the registration processors developed by Dept. 5962 leading up to MREG V1.1, a full description of the signal processing steps involved in the algorithm, and a user's manual with application specific recommendations for CCD, TwoColor MultiView, and SAR stereoscopy.

Síntese de látices com baixa concentração de compostos orgânicos voláteis (COVs: efeito das técnicas de redução dos COVs nas propriedades dos látexes e das tintas

Directory of Open Access Journals (Sweden)

Maurício Pinheiro de Oliveira

2014-08-01

Full Text Available A redução dos compostos orgânicos voláteis (COVs nos látices produzidos via polimerização em emulsão é uma opção viável, mas em algumas situações pode comprometer a qualidade do látex. Diferentes técnicas de redução da concentração dos monômeros e dos COVs foram estudadas com o objetivo de entender o efeito destas técnicas e da concentração dos COVs nas propriedades de aplicação dos látices e das tintas. Os látices de estireno com acrilato de 2-etil hexila funcionalizados com ácido acrílico e acrilamida foram produzidos via polimerização em emulsão, seguido por remoção química, física e a combinação de ambas as técnicas de redução dos monômeros e dos COVs. Os parâmetros relacionados à técnica de redução dos COVs, ao tipo de iniciador, ao agente de redução e à introdução de nitrogênio saturado com vapor de água foram estudados e correlacionados com as propriedades de aplicação das tintas. A combinação da técnica química com a técnica física foi mais eficiente na redução dos monômeros e dos COVs nos látices. As técnicas utilizadas na redução dos COVs tiveram influência negativa nas propriedades de aplicação dos látices. A resistência à abrasão dos filmes de tinta foi dependente da técnica empregada e da concentração dos COVs.

Roadmap to developing a recombinant coronavirus S protein receptor-binding domain vaccine for severe acute respiratory syndrome

Science.gov (United States)

Jiang, Shibo; Bottazzi, Maria Elena; Du, Lanying; Lustigman, Sara; Tseng, Chien-Te Kent; Curti, Elena; Jones, Kathryn; Zhan, Bin; Hotez, Peter J

2013-01-01

A subunit vaccine, RBD-S, is under development to prevent severe acute respiratory syndrome (SARS) caused by SARS coronavirus (SARS-CoV), which is classified by the US NIH as a category C pathogen. This vaccine is comprised of a recombinant receptor-binding domain (RBD) of the SARS-CoV spike (S) protein and formulated on alum, together with a synthetic glucopyranosyl lipid A. The vaccine would induce neutralizing antibodies without causing Th2-type immunopathology. Vaccine development is being led by the nonprofit product development partnership; Sabin Vaccine Institute and Texas Children’s Hospital Center for Vaccine Development in collaboration with two academic partners (the New York Blood Center and University of Texas Medical Branch); an industrial partner (Immune Design Corporation); and Walter Reed Army Institute of Research. A roadmap for the product development of the RBD-S SARS vaccine is outlined with a goal to manufacture the vaccine for clinical testing within the next 5 years. PMID:23252385

Overexpression of Cu-Zn SOD in Brucella abortus suppresses bacterial intracellular replication via down-regulation of Sar1 activity

Science.gov (United States)

Liu, Xiaofeng; Zhou, Mi; Yang, Yanling; Wu, Jing; Peng, Qisheng

2018-01-01

Brucella Cu-Zn superoxide dismutase (Cu-Zn SOD) is a periplasmic protein, and immunization of mice with recombinant Cu-Zn SOD protein confers protection against Brucella abortus infection. However, the role of Cu-Zn SOD during the process of Brucella infection remains unknown. Here, we report that Cu-Zn SOD is secreted into culture medium and is translocated into host cells independent of type IV secretion systems (T4SS). Furthermore, co-immunoprecipitation and immunofluorescence studies reveal that Brucella abortus Cu-Zn SOD interacts with the small GTPase Sar1. Overexpression of Cu-Zn SOD in Brucella abortus inhibits bacterial intracellular growth by abolishing Sar1 activity in a manner independent of reactive oxygen species (ROS) production. PMID:29515756

SarA is a negative regulator of Staphylococcus epidermidis biofilm formation

DEFF Research Database (Denmark)

Martin, Christer; Heinze, C.; Busch, M.

2012-01-01

Biofilm formation is essential for Staphylococcus epidermidis pathogenicity in implant-associated infections. Nonetheless, large proportions of invasive S. epidermidis isolates fail to show accumulative biofilm growth in vitro. We here tested the hypothesis that this apparent paradox is related...... virulence. Genetic analysis revealed that inactivation of sarA induced biofilm formation via over-expression of the giant 1 MDa extracellular matrix binding protein (Embp), serving as an intercellular adhesin. In addition to Embp, increased extracellular DNA (eDNA) release significantly contributed...... to biofilm formation in mutant 1585ΔsarA. Increased eDNA amounts indirectly resulted from up-regulation of metalloprotease SepA, leading to boosted processing of major autolysin AtlE, in turn inducing augmented autolysis and release of chromosomal DNA. Hence, this study identifies sarA as a negative...

Coronavirus envelope (E) protein remains at the site of assembly

International Nuclear Information System (INIS)

Venkatagopalan, Pavithra; Daskalova, Sasha M.; Lopez, Lisa A.; Dolezal, Kelly A.; Hogue, Brenda G.

2015-01-01

Coronaviruses (CoVs) assemble at endoplasmic reticulum Golgi intermediate compartment (ERGIC) membranes and egress from cells in cargo vesicles. Only a few molecules of the envelope (E) protein are assembled into virions. The role of E in morphogenesis is not fully understood. The cellular localization and dynamics of mouse hepatitis CoV A59 (MHV) E protein were investigated to further understanding of its role during infection. E protein localized in the ERGIC and Golgi with the amino and carboxy termini in the lumen and cytoplasm, respectively. E protein does not traffic to the cell surface. MHV was genetically engineered with a tetracysteine tag at the carboxy end of E. Fluorescence recovery after photobleaching (FRAP) showed that E is mobile in ERGIC/Golgi membranes. Correlative light electron microscopy (CLEM) confirmed the presence of E in Golgi cisternae. The results provide strong support that E proteins carry out their function(s) at the site of budding/assembly. - Highlights: • Mouse hepatitis coronavirus (MHV-CoV) E protein localizes in the ERGIC and Golgi. • MHV-CoV E does not transport to the cell surface. • MHV-CoV can be genetically engineered with a tetracysteine tag appended to E. • First FRAP and correlative light electron microscopy of a CoV E protein. • Live-cell imaging shows that E is mobile in ERGIC/Golgi membranes

Coronavirus envelope (E) protein remains at the site of assembly

Energy Technology Data Exchange (ETDEWEB)

Venkatagopalan, Pavithra [The Biodesign Institute, Center for Infectious Diseases and Vaccinology, Arizona State University, Tempe, AZ 85287-5401 (United States); School of Life Sciences, Arizona State University, Tempe, AZ 85287-5401 (United States); Microbiology Graduate Program, Arizona State University, Tempe, AZ 85287-5401 (United States); Daskalova, Sasha M. [The Biodesign Institute, Center for Infectious Diseases and Vaccinology, Arizona State University, Tempe, AZ 85287-5401 (United States); Department of Biochemistry and Chemistry, Arizona State University, Tempe, AZ 85287-5401 (United States); Lopez, Lisa A. [The Biodesign Institute, Center for Infectious Diseases and Vaccinology, Arizona State University, Tempe, AZ 85287-5401 (United States); School of Life Sciences, Arizona State University, Tempe, AZ 85287-5401 (United States); Molecular and Cellular Biology Graduate Program, Arizona State University, Tempe, AZ 85287-5401 (United States); Dolezal, Kelly A. [The Biodesign Institute, Center for Infectious Diseases and Vaccinology, Arizona State University, Tempe, AZ 85287-5401 (United States); School of Life Sciences, Arizona State University, Tempe, AZ 85287-5401 (United States); Microbiology Graduate Program, Arizona State University, Tempe, AZ 85287-5401 (United States); Hogue, Brenda G., E-mail: Brenda.Hogue@asu.edu [The Biodesign Institute, Center for Infectious Diseases and Vaccinology, Arizona State University, Tempe, AZ 85287-5401 (United States); School of Life Sciences, Arizona State University, Tempe, AZ 85287-5401 (United States)

2015-04-15

Coronaviruses (CoVs) assemble at endoplasmic reticulum Golgi intermediate compartment (ERGIC) membranes and egress from cells in cargo vesicles. Only a few molecules of the envelope (E) protein are assembled into virions. The role of E in morphogenesis is not fully understood. The cellular localization and dynamics of mouse hepatitis CoV A59 (MHV) E protein were investigated to further understanding of its role during infection. E protein localized in the ERGIC and Golgi with the amino and carboxy termini in the lumen and cytoplasm, respectively. E protein does not traffic to the cell surface. MHV was genetically engineered with a tetracysteine tag at the carboxy end of E. Fluorescence recovery after photobleaching (FRAP) showed that E is mobile in ERGIC/Golgi membranes. Correlative light electron microscopy (CLEM) confirmed the presence of E in Golgi cisternae. The results provide strong support that E proteins carry out their function(s) at the site of budding/assembly. - Highlights: • Mouse hepatitis coronavirus (MHV-CoV) E protein localizes in the ERGIC and Golgi. • MHV-CoV E does not transport to the cell surface. • MHV-CoV can be genetically engineered with a tetracysteine tag appended to E. • First FRAP and correlative light electron microscopy of a CoV E protein. • Live-cell imaging shows that E is mobile in ERGIC/Golgi membranes.

Induction of Th1 type response by DNA vaccinations with N, M, and E genes against SARS-CoV in mice

International Nuclear Information System (INIS)

Jin Huali; Xiao Chong; Chen Ze; Kang Youmin; Ma Yijie; Zhu Kaichun; Xie Qifa; Tu Yixian; Yu Yang; Wang Bin

2005-01-01

Vaccination against the SARS-CoV infection is an attractive means to control the spread of viruses in public. In this study, we employed a DNA vaccine technology with the levamisole, our newly discovered chemical adjuvant, to generate Th1 type of response. To avoid the enhancement antibody issue, genes encoding the nucleocapsid, membrane, and envelope protein of SARS-CoV were cloned and their expressions in mammalian cells were determined. After the intramuscular introduction into animals, we observed that the constructs of the E, M, and N genes could induce high levels of specific antibodies, T cell proliferations, IFN-γ, DTH responses, and in vivo cytotoxic T cells activities specifically against SARS-CoV antigens. The highest immune responses were generated by the construct encoding the nucleocapsid protein. The results suggest that the N, M, and E genes could be used as the targets to prevent SARS-CoV infection in the DNA vaccine development

Ezrin interacts with the SARS coronavirus Spike protein and restrains infection at the entry stage.

Directory of Open Access Journals (Sweden)

Jean Kaoru Millet

Full Text Available BACKGROUND: Entry of Severe Acute Respiratory Syndrome coronavirus (SARS-CoV and its envelope fusion with host cell membrane are controlled by a series of complex molecular mechanisms, largely dependent on the viral envelope glycoprotein Spike (S. There are still many unknowns on the implication of cellular factors that regulate the entry process. METHODOLOGY/PRINCIPAL FINDINGS: We performed a yeast two-hybrid screen using as bait the carboxy-terminal endodomain of S, which faces the cytosol during and after opening of the fusion pore at early stages of the virus life cycle. Here we show that the ezrin membrane-actin linker interacts with S endodomain through the F1 lobe of its FERM domain and that both the eight carboxy-terminal amino-acids and a membrane-proximal cysteine cluster of S endodomain are important for this interaction in vitro. Interestingly, we found that ezrin is present at the site of entry of S-pseudotyped lentiviral particles in Vero E6 cells. Targeting ezrin function by small interfering RNA increased S-mediated entry of pseudotyped particles in epithelial cells. Furthermore, deletion of the eight carboxy-terminal amino acids of S enhanced S-pseudotyped particles infection. Expression of the ezrin dominant negative FERM domain enhanced cell susceptibility to infection by SARS-CoV and S-pseudotyped particles and potentiated S-dependent membrane fusion. CONCLUSIONS/SIGNIFICANCE: Ezrin interacts with SARS-CoV S endodomain and limits virus entry and fusion. Our data present a novel mechanism involving a cellular factor in the regulation of S-dependent early events of infection.

The effect of inhibition of PP1 and TNFα signaling on pathogenesis of SARS coronavirus

Energy Technology Data Exchange (ETDEWEB)

McDermott, Jason E.; Mitchell, Hugh D.; Gralinski, Lisa E.; Eisfeld, Amie J.; Josset, Laurence; Bankhead, Armand; Neumann, Gabriele; Tilton, Susan C.; Schäfer, Alexandra; Li, Chengjun; Fan, Shufang; McWeeney, Shannon; Baric, Ralph S.; Katze, Michael G.; Waters, Katrina M.

2016-09-23

The complex interplay between viral replication and host immune response during infection remains poorly understood. While many viruses are known to employ antiimmune strategies to facilitate their replication, highly pathogenic virus infections can also cause an excessive immune response that exacerbates, rather than reduces pathogenicity. To investigate this dichotomy in severe acute respiratory syndrome coronavirus (SARS-CoV), we developed a transcriptional network model of SARS-CoV infection in mice and used the model to prioritize candidate regulatory targets for further investigation. We validated our predictions in 18 different knockout (KO) mouse strains, showing that network topology provides significant predictive power to identify genes that are important for viral infection. We identified a novel player in the immune response to virus infection, Kepi, an inhibitory subunit of the protein phosphatase 1 (PP1) complex, which protects against SARS-CoV pathogenesis. We also found that receptors for the proinflammatory cytokine, tumor necrosis factor alpha (TNFα), promote pathogenesis through a parallel feed-forward circuit that promotes inflammation. These results are consistent with previous studies showing the role of over-stimulation of the inflammatory response to SARS-CoV in pathogenesis. We conclude that the critical balance between immune response and inflammation can be manipulated to improve the outcome of the infection. Further, our study provides two potential therapeutic strategies for mitigating the effects of SARS-CoV infection, and may provide insight into treatment strategies for Middle East Respiratory Syndrome Coronavirus (MERS-CoV).

Increased tolerance to two oomycete pathogens in transgenic tobacco expressing pathogenesis-related protein 1a.

OpenAIRE

Alexander, D; Goodman, R M; Gut-Rella, M; Glascock, C; Weymann, K; Friedrich, L; Maddox, D; Ahl-Goy, P; Luntz, T; Ward, E

1993-01-01

Expression of pathogenesis-related protein 1a (PR-1a), a protein of unknown biochemical function, is induced to high levels in tobacco in response to pathogen infection. The induction of PR-1a expression is tightly correlated with the onset of systemic acquired resistance (SAR), a defense response effective against a variety of fungal, viral, and bacterial pathogens. While PR-1a has been postulated to be involved in SAR, and is the most highly expressed of the PR proteins, evidence for its ro...

METH-33 - Performance assessment for the high resolution and wide swath (HRWS) post-Sentinel-1 SAR system

DEFF Research Database (Denmark)

Zonno, Mariantonietta; Maria J., Sanjuan-Ferrer,; Lopez-Dekker, Paco

The next generation, post-Sentinel-1, ESA’s C-band synthetic aperture radar (SAR) system is conceived to provide simultaneously high azimuth resolution and wide swath width (HRWS).There are different ways in which the imaging capabilities of the HRWS SAR system can be exploited, which translate...... or numerical models and, if these are not available, real SAR images as well as numerical algorithms and some explicit simulations of the data and of the inversion process are employed. The tool uses as input the HRWS SAR instrument performance for the different applicable modes and produces as output results...

Combined DEM Extration Method from StereoSAR and InSAR

Science.gov (United States)

Zhao, Z.; Zhang, J. X.; Duan, M. Y.; Huang, G. M.; Yang, S. C.

2015-06-01

A pair of SAR images acquired from different positions can be used to generate digital elevation model (DEM). Two techniques exploiting this characteristic have been introduced: stereo SAR and interferometric SAR. They permit to recover the third dimension (topography) and, at the same time, to identify the absolute position (geolocation) of pixels included in the imaged area, thus allowing the generation of DEMs. In this paper, StereoSAR and InSAR combined adjustment model are constructed, and unify DEM extraction from InSAR and StereoSAR into the same coordinate system, and then improve three dimensional positioning accuracy of the target. We assume that there are four images 1, 2, 3 and 4. One pair of SAR images 1,2 meet the required conditions for InSAR technology, while the other pair of SAR images 3,4 can form stereo image pairs. The phase model is based on InSAR rigorous imaging geometric model. The master image 1 and the slave image 2 will be used in InSAR processing, but the slave image 2 is only used in the course of establishment, and the pixels of the slave image 2 are relevant to the corresponding pixels of the master image 1 through image coregistration coefficient, and it calculates the corresponding phase. It doesn't require the slave image in the construction of the phase model. In Range-Doppler (RD) model, the range equation and Doppler equation are a function of target geolocation, while in the phase equation, the phase is also a function of target geolocation. We exploit combined adjustment model to deviation of target geolocation, thus the problem of target solution is changed to solve three unkonwns through seven equations. The model was tested for DEM extraction under spaceborne InSAR and StereoSAR data and compared with InSAR and StereoSAR methods respectively. The results showed that the model delivered a better performance on experimental imagery and can be used for DEM extraction applications.

Chimeric exchange of coronavirus nsp5 proteases (3CLpro) identifies common and divergent regulatory determinants of protease activity.

Science.gov (United States)

Stobart, Christopher C; Sexton, Nicole R; Munjal, Havisha; Lu, Xiaotao; Molland, Katrina L; Tomar, Sakshi; Mesecar, Andrew D; Denison, Mark R

2013-12-01

Human coronaviruses (CoVs) such as severe acute respiratory syndrome CoV (SARS-CoV) and Middle East respiratory syndrome CoV (MERS-CoV) cause epidemics of severe human respiratory disease. A conserved step of CoV replication is the translation and processing of replicase polyproteins containing 16 nonstructural protein domains (nsp's 1 to 16). The CoV nsp5 protease (3CLpro; Mpro) processes nsp's at 11 cleavage sites and is essential for virus replication. CoV nsp5 has a conserved 3-domain structure and catalytic residues. However, the intra- and intermolecular determinants of nsp5 activity and their conservation across divergent CoVs are unknown, in part due to challenges in cultivating many human and zoonotic CoVs. To test for conservation of nsp5 structure-function determinants, we engineered chimeric betacoronavirus murine hepatitis virus (MHV) genomes encoding nsp5 proteases of human and bat alphacoronaviruses and betacoronaviruses. Exchange of nsp5 proteases from HCoV-HKU1 and HCoV-OC43, which share the same genogroup, genogroup 2a, with MHV, allowed for immediate viral recovery with efficient replication albeit with impaired fitness in direct competition with wild-type MHV. Introduction of MHV nsp5 temperature-sensitive mutations into chimeric HKU1 and OC43 nsp5 proteases resulted in clear differences in viability and temperature-sensitive phenotypes compared with MHV nsp5. These data indicate tight genetic linkage and coevolution between nsp5 protease and the genomic background and identify differences in intramolecular networks regulating nsp5 function. Our results also provide evidence that chimeric viruses within coronavirus genogroups can be used to test nsp5 determinants of function and inhibition in common isogenic backgrounds and cell types.

Acetylene Black Induced Heterogeneous Growth of Macroporous CoV2O6 Nanosheet for High-Rate Pseudocapacitive Lithium-Ion Battery Anode.

Science.gov (United States)

Zhang, Lei; Zhao, Kangning; Luo, Yanzhu; Dong, Yifan; Xu, Wangwang; Yan, Mengyu; Ren, Wenhao; Zhou, Liang; Qu, Longbing; Mai, Liqiang

2016-03-23

Metal vanadates suffer from fast capacity fading in lithium-ion batteries especially at a high rate. Pseudocapacitance, which is associated with surface or near-surface redox reactions, can provide fast charge/discharge capacity free from diffusion-controlled intercalation processes and is able to address the above issue. In this work, we report the synthesis of macroporous CoV2O6 nanosheets through a facile one-pot method via acetylene black induced heterogeneous growth. When applied as lithium-ion battery anode, the macroporous CoV2O6 nanosheets show typical features of pseudocapacitive behavior: (1) currents that are mostly linearly dependent on sweep rate and (2) redox peaks whose potentials do not shift significantly with sweep rate. The macroporous CoV2O6 nanosheets display a high reversible capacity of 702 mAh g(-1) at 200 mA g(-1), excellent cyclability with a capacity retention of 89% (against the second cycle) after 500 cycles at 500 mA g(-1), and high rate capability of 453 mAh g(-1) at 5000 mA g(-1). We believe that the introduction of pseudocapacitive properties in lithium battery is a promising direction for developing electrode materials with high-rate capability.

Feature Fusion Based Road Extraction for HJ-1-C SAR Image

Directory of Open Access Journals (Sweden)

Lu Ping-ping

2014-06-01

Full Text Available Road network extraction in SAR images is one of the key tasks of military and civilian technologies. To solve the issues of road extraction of HJ-1-C SAR images, a road extraction algorithm is proposed based on the integration of ratio and directional information. Due to the characteristic narrow dynamic range and low signal to noise ratio of HJ-1-C SAR images, a nonlinear quantization and an image filtering method based on a multi-scale autoregressive model are proposed here. A road extraction algorithm based on information fusion, which considers ratio and direction information, is also proposed. By processing Radon transformation, main road directions can be extracted. Cross interferences can be suppressed, and the road continuity can then be improved by the main direction alignment and secondary road extraction. The HJ-1-C SAR image acquired in Wuhan, China was used to evaluate the proposed method. The experimental results show good performance with correctness (80.5% and quality (70.1% when applied to a SAR image with complex content.

A 10-bit 200-kS/s SAR ADC IP core for a touch screen SoC

International Nuclear Information System (INIS)

Tong Xingyuan; Yang Yintang; Zhu Zhangming; Sheng Wenfang

2010-01-01

Based on a 5 MSBs (most-significant-bits)-plus-5 LSBs (least-significant-bits) C-R hybrid D/A conversion and low-offset pseudo-differential comparison approach, with capacitor array axially symmetric layout topology and resistor string low gradient mismatch placement method, an 8-channel 10-bit 200-kS/s SAR ADC (successive-approximation-register analog-to-digital converter) IP core for a touch screen SoC (system-on-chip) is implemented in a 0.18 μm 1P5M CMOS logic process. Design considerations for the touch screen SAR ADC are included. With a 1.8 V power supply, the DNL (differential non-linearity) and INL (integral non-linearity) of this converter are measured to be about 0.32 LSB and 0.81 LSB respectively. With an input frequency of 91 kHz at 200-kS/s sampling rate, the spurious-free dynamic range and effective-number-of-bits are measured to be 63.2 dB and 9.15 bits respectively, and the power is about 136 μW. This converter occupies an area of about 0.08 mm 2 . The design results show that it is very suitable for touch screen SoC applications. (semiconductor integrated circuits)

Structural Insights into Immune Recognition of the Severe Acute Respiratory Syndrome Coronavirus S Protein Receptor Binding Domain

Energy Technology Data Exchange (ETDEWEB)

Pak, J.; Sharon, C; Satkunarajah, M; Thierry, C; Cameron, C; Kelvin, D; Seetharaman, J; Cochrane, A; Plummer, F; et. al.

2009-01-01

The spike (S) protein of the severe acute respiratory syndrome coronavirus (SARS-CoV) is responsible for host cell attachment and fusion of the viral and host cell membranes. Within S the receptor binding domain (RBD) mediates the interaction with angiotensin-converting enzyme 2 (ACE2), the SARS-CoV host cell receptor. Both S and the RBD are highly immunogenic and both have been found to elicit neutralizing antibodies. Reported here is the X-ray crystal structure of the RBD in complex with the Fab of a neutralizing mouse monoclonal antibody, F26G19, elicited by immunization with chemically inactivated SARS-CoV. The RBD-F26G19 Fab complex represents the first example of the structural characterization of an antibody elicited by an immune response to SARS-CoV or any fragment of it. The structure reveals that the RBD surface recognized by F26G19 overlaps significantly with the surface recognized by ACE2 and, as such, suggests that F26G19 likely neutralizes SARS-CoV by blocking the virus-host cell interaction.

Discovery of the 3-Imino-1,2,4-thiadiazinane 1,1-Dioxide Derivative Verubecestat (MK-8931)–A β-Site Amyloid Precursor Protein Cleaving Enzyme 1 Inhibitor for the Treatment of Alzheimer’s Disease

Energy Technology Data Exchange (ETDEWEB)

Scott, Jack D.; Li, Sarah W.; Brunskill, Andrew P.J.; Chen, Xia; Cox, Kathleen; Cumming, Jared N.; Forman, Mark; Gilbert, Eric J.; Hodgson, Robert A.; Hyde, Lynn A.; Jiang, Qin; Iserloh, Ulrich; Kazakevich, Irina; Kuvelkar, Reshma; Mei, Hong; Meredith, John; Misiaszek, Jeffrey; Orth, Peter; Rossiter, Lana M.; Slater, Meagan; Stone, Julie; Strickland, Corey O.; Voigt, Johannes H.; Wang, Ganfeng; Wang, Hongwu; Wu, Yusheng; Greenlee, William J.; Parker, Eric M.; Kennedy, Matthew E.; Stamford, Andrew W. (Merck)

2016-12-08

Verubecestat 3 (MK-8931), a diaryl amide-substituted 3-imino-1,2,4-thiadiazinane 1,1-dioxide derivative, is a high-affinity β-site amyloid precursor protein cleaving enzyme 1 (BACE1) inhibitor currently undergoing Phase 3 clinical evaluation for the treatment of mild to moderate and prodromal Alzheimer’s disease. Although not selective over the closely related aspartyl protease BACE2, verubecestat has high selectivity for BACE1 over other key aspartyl proteases, notably cathepsin D, and profoundly lowers CSF and brain Aβ levels in rats and nonhuman primates and CSF Aβ levels in humans. In this annotation, we describe the discovery of 3, including design, validation, and selected SAR around the novel iminothiadiazinane dioxide core as well as aspects of its preclinical and Phase 1 clinical characterization.

Selection of SARS-Coronavirus-specific B cell epitopes by phage peptide library screening and evaluation of the immunological effect of epitope-based peptides on mice

International Nuclear Information System (INIS)

Yu Hua; Jiang Lifang; Fang Danyun; Yan Huijun; Zhou Jingjiao; Zhou Junmei; Liang Yu; Gao Yang; Zhao, Wei; Long Beiguo

2007-01-01

Antibodies to SARS-Coronavirus (SARS-CoV)-specific B cell epitopes might recognize the pathogen and interrupt its adherence to and penetration of host cells. Hence, these epitopes could be useful for diagnosis and as vaccine constituents. Using the phage-displayed peptide library screening method and purified Fab fragments of immunoglobulin G (IgG Fab) from normal human sera and convalescent sera from SARS-CoV-infected patients as targets, 11 B cell epitopes of SARS-CoV spike glycoprotein (S protein) and membrane protein (M protein) were screened. After a bioinformatics tool was used to analyze these epitopes, four epitope-based S protein dodecapeptides corresponding to the predominant epitopes were chosen for synthesis. Their antigenic specificities and immunogenicities were studied in vitro and in vivo. Flow cytometry and ELISPOT analysis of lymphocytes as well as a serologic analysis of antibody showed that these peptides could trigger a rapid, highly effective, and relatively safe immune response in BALB/c mice. These findings might aid development of SARS diagnostics and vaccines. Moreover, the role of S and M proteins as important surface antigens is confirmed

Severe acute respiratory syndrome vaccine efficacy in ferrets: whole killed virus and adenovirus-vectored vaccines.

Science.gov (United States)

See, Raymond H; Petric, Martin; Lawrence, David J; Mok, Catherine P Y; Rowe, Thomas; Zitzow, Lois A; Karunakaran, Karuna P; Voss, Thomas G; Brunham, Robert C; Gauldie, Jack; Finlay, B Brett; Roper, Rachel L

2008-09-01

Although the 2003 severe acute respiratory syndrome (SARS) outbreak was controlled, repeated transmission of SARS coronavirus (CoV) over several years makes the development of a SARS vaccine desirable. We performed a comparative evaluation of two SARS vaccines for their ability to protect against live SARS-CoV intranasal challenge in ferrets. Both the whole killed SARS-CoV vaccine (with and without alum) and adenovirus-based vectors encoding the nucleocapsid (N) and spike (S) protein induced neutralizing antibody responses and reduced viral replication and shedding in the upper respiratory tract and progression of virus to the lower respiratory tract. The vaccines also diminished haemorrhage in the thymus and reduced the severity and extent of pneumonia and damage to lung epithelium. However, despite high neutralizing antibody titres, protection was incomplete for all vaccine preparations and administration routes. Our data suggest that a combination of vaccine strategies may be required for effective protection from this pathogen. The ferret may be a good model for SARS-CoV infection because it is the only model that replicates the fever seen in human patients, as well as replicating other SARS disease features including infection by the respiratory route, clinical signs, viral replication in upper and lower respiratory tract and lung damage.

Severe acute respiratory syndrome (SARS)

Science.gov (United States)

SARS; Respiratory failure - SARS ... Complications may include: Respiratory failure Liver failure Heart failure ... 366. McIntosh K, Perlman S. Coronaviruses, including severe acute respiratory syndrome (SARS) and Middle East respiratory syndrome (MERS). ...

7 T body MRI: B1 shimming with simultaneous SAR reduction

International Nuclear Information System (INIS)

Bergen, Bob van den; Berg, Cornelis A T van den; Bartels, Lambertus W; Lagendijk, Jan J W

2007-01-01

The high frequency of the radiofrequency (RF) fields used in high field magnetic resonance imaging (MRI) results in electromagnetic field variations that can cause local regions to have a large specific absorption rate (SAR) and/or a low excitation. In this study, we evaluated the use of a B 1 shimming technique which can simultaneously improve the B + 1 homogeneity and reduce the SAR for whole body imaging at 7 T. Optimizations for four individual anatomies showed a reduction up to 74% of the peak SAR values with respect to a quadrature excitation and a simultaneous improvement of the B + 1 homogeneity varying between 39 and 75% for different optimization parameters. The average SAR was reduced with approximately 50% for all optimizations. The optimized phase and amplitude settings from an elliptical phantom model were applied to four realistic human anatomy models to evaluate whether a generic application without prior knowledge of the detailed human anatomy is possible. This resulted in an average improvement of the B + 1 homogeneity of 37% and an average reduction of the maximum and average SAR of 50 and 55%, respectively. It can be concluded that this generic method can be used as a simple method to improve the prospects of 7 T body imaging

Systemic acquired resistance in soybean is regulated by two proteins, Orthologous to Arabidopsis NPR1

Directory of Open Access Journals (Sweden)

Sandhu Devinder

2009-08-01

Full Text Available Abstract Background Systemic acquired resistance (SAR is induced in non-inoculated leaves following infection with certain pathogenic strains. SAR is effective against many pathogens. Salicylic acid (SA is a signaling molecule of the SAR pathway. The development of SAR is associated with the induction of pathogenesis related (PR genes. Arabidopsis non-expressor of PR1 (NPR1 is a regulatory gene of the SA signal pathway 123. SAR in soybean was first reported following infection with Colletotrichum trancatum that causes anthracnose disease. We investigated if SAR in soybean is regulated by a pathway, similar to the one characterized in Arabidopsis. Results Pathogenesis-related gene GmPR1 is induced following treatment of soybean plants with the SAR inducer, 2,6-dichloroisonicotinic acid (INA or infection with the oomycete pathogen, Phytophthora sojae. In P. sojae-infected plants, SAR was induced against the bacterial pathogen, Pseudomonas syringae pv. glycinea. Soybean GmNPR1-1 and GmNPR1-2 genes showed high identities to Arabidopsis NPR1. They showed similar expression patterns among the organs, studied in this investigation. GmNPR1-1 and GmNPR1-2 are the only soybean homologues of NPR1and are located in homoeologous regions. In GmNPR1-1 and GmNPR1-2 transformed Arabidopsis npr1-1 mutant plants, SAR markers: (i PR-1 was induced following INA treatment and (ii BGL2 following infection with Pseudomonas syringae pv. tomato (Pst, and SAR was induced following Pst infection. Of the five cysteine residues, Cys82, Cys150, Cys155, Cys160, and Cys216 involved in oligomer-monomer transition in NPR1, Cys216 in GmNPR1-1 and GmNPR1-2 proteins was substituted to Ser and Leu, respectively. Conclusion Complementation analyses in Arabidopsis npr1-1 mutants revealed that homoeologous GmNPR1-1 and GmNPR1-2 genes are orthologous to Arabidopsis NPR1. Therefore, SAR pathway in soybean is most likely regulated by GmNPR1 genes. Substitution of Cys216 residue, essential

Systemic acquired resistance in soybean is regulated by two proteins, Orthologous to Arabidopsis NPR1.

Science.gov (United States)

Sandhu, Devinder; Tasma, I Made; Frasch, Ryan; Bhattacharyya, Madan K

2009-08-05

Systemic acquired resistance (SAR) is induced in non-inoculated leaves following infection with certain pathogenic strains. SAR is effective against many pathogens. Salicylic acid (SA) is a signaling molecule of the SAR pathway. The development of SAR is associated with the induction of pathogenesis related (PR) genes. Arabidopsis non-expressor of PR1 (NPR1) is a regulatory gene of the SA signal pathway 123. SAR in soybean was first reported following infection with Colletotrichum trancatum that causes anthracnose disease. We investigated if SAR in soybean is regulated by a pathway, similar to the one characterized in Arabidopsis. Pathogenesis-related gene GmPR1 is induced following treatment of soybean plants with the SAR inducer, 2,6-dichloroisonicotinic acid (INA) or infection with the oomycete pathogen, Phytophthora sojae. In P. sojae-infected plants, SAR was induced against the bacterial pathogen, Pseudomonas syringae pv. glycinea. Soybean GmNPR1-1 and GmNPR1-2 genes showed high identities to Arabidopsis NPR1. They showed similar expression patterns among the organs, studied in this investigation. GmNPR1-1 and GmNPR1-2 are the only soybean homologues of NPR1and are located in homoeologous regions. In GmNPR1-1 and GmNPR1-2 transformed Arabidopsis npr1-1 mutant plants, SAR markers: (i) PR-1 was induced following INA treatment and (ii) BGL2 following infection with Pseudomonas syringae pv. tomato (Pst), and SAR was induced following Pst infection. Of the five cysteine residues, Cys82, Cys150, Cys155, Cys160, and Cys216 involved in oligomer-monomer transition in NPR1, Cys216 in GmNPR1-1 and GmNPR1-2 proteins was substituted to Ser and Leu, respectively. Complementation analyses in Arabidopsis npr1-1 mutants revealed that homoeologous GmNPR1-1 and GmNPR1-2 genes are orthologous to Arabidopsis NPR1. Therefore, SAR pathway in soybean is most likely regulated by GmNPR1 genes. Substitution of Cys216 residue, essential for oligomer-monomer transition of Arabidopsis NPR1

Regulation of human protein S gene (PROS1) transcription

NARCIS (Netherlands)

Wolf, Cornelia de

2006-01-01

This thesis describes the investigation of the transcriptional regulation of the gene for anticoagulant plasma Protein S, PROS1. Protein S is a cofactor for Protein C in the Protein C anticoagulant pathway. The coagulation cascade is negatively regulated by this pathway through inactivation of

Expression, purification and crystallization of the SARS-CoV macro domain

International Nuclear Information System (INIS)

Malet, Hélène; Dalle, Karen; Brémond, Nicolas; Tocque, Fabienne; Blangy, Stéphanie; Campanacci, Valérie; Coutard, Bruno; Grisel, Sacha; Lichière, Julie; Lantez, Violaine; Cambillau, Christian; Canard, Bruno; Egloff, Marie-Pierre

2006-01-01

The SARS-CoV macro domain was expressed, purified and crystallized. Selenomethionine-labelled crystals diffracted to 1.8 Å resolution. Macro domains or X domains are found as modules of multidomain proteins, but can also constitute a protein on their own. Recently, biochemical and structural studies of cellular macro domains have been performed, showing that they are active as ADP-ribose-1′′-phosphatases. Macro domains are also present in a number of positive-stranded RNA viruses, but their precise function in viral replication is still unknown. The major human pathogen severe acute respiratory syndrome coronavirus (SARS-CoV) encodes 16 non-structural proteins (nsps), one of which (nsp3) encompasses a macro domain. The SARS-CoV nsp3 gene region corresponding to amino acids 182–355 has been cloned, expressed in Escherichia coli, purified and crystallized. The crystals belong to space group P2 1 , with unit-cell parameters a = 37.5, b = 55.6, c = 108.9 Å, β = 91.4°, and the asymmetric unit contains either two or three molecules. Both native and selenomethionine-labelled crystals diffract to 1.8 Å

Expression, purification and crystallization of the SARS-CoV macro domain

Energy Technology Data Exchange (ETDEWEB)

Malet, Hélène; Dalle, Karen; Brémond, Nicolas; Tocque, Fabienne; Blangy, Stéphanie; Campanacci, Valérie; Coutard, Bruno; Grisel, Sacha; Lichière, Julie; Lantez, Violaine; Cambillau, Christian; Canard, Bruno; Egloff, Marie-Pierre, E-mail: marie-pierre.egloff@afmb.univ-mrs.fr [Centre National de la Recherche Scientifique and Universités d’Aix-Marseille I et II, UMR 6098, Architecture et Fonction des Macromolécules Biologiques, UMR 6098-Case 932, 163 Avenue de Luminy, 13288 Marseille CEDEX 9 (France)

2006-04-01

The SARS-CoV macro domain was expressed, purified and crystallized. Selenomethionine-labelled crystals diffracted to 1.8 Å resolution. Macro domains or X domains are found as modules of multidomain proteins, but can also constitute a protein on their own. Recently, biochemical and structural studies of cellular macro domains have been performed, showing that they are active as ADP-ribose-1′′-phosphatases. Macro domains are also present in a number of positive-stranded RNA viruses, but their precise function in viral replication is still unknown. The major human pathogen severe acute respiratory syndrome coronavirus (SARS-CoV) encodes 16 non-structural proteins (nsps), one of which (nsp3) encompasses a macro domain. The SARS-CoV nsp3 gene region corresponding to amino acids 182–355 has been cloned, expressed in Escherichia coli, purified and crystallized. The crystals belong to space group P2{sub 1}, with unit-cell parameters a = 37.5, b = 55.6, c = 108.9 Å, β = 91.4°, and the asymmetric unit contains either two or three molecules. Both native and selenomethionine-labelled crystals diffract to 1.8 Å.

Wave directional spectrum from SAR imagery

Digital Repository Service at National Institute of Oceanography (India)

Fernandes, A.A.; Sarma, Y.V.B.; Menon, H.B.; Vethamony, P.

< 2m and the zero-crossing period during the satellite overpass is small (< 6s, �O�O < 60m). We therefore utilized the visit of one of the authors (Sarma) to the Southampton Oceanographic Centre, U.K., to procure two ERS-1 digital image mode SAR...-dimensional FFT as well as a computer program for downloading SAR data from CCT. Finally we owe a debt of gratitude to J C da Silva, Southampton Oceanographic Centre, U K for sharing some of his SAR data with us. References Allan T. D. (Ed) (1983...

[Family of ribosomal proteins S1 contains unique conservative domain].

Science.gov (United States)

Deriusheva, E I; Machulin, A V; Selivanova, O M; Serdiuk, I N

2010-01-01

Different representatives of bacteria have different number of amino acid residues in the ribosomal proteins S1. This number varies from 111 (Spiroplasma kunkelii) to 863 a.a. (Treponema pallidum). Traditionally and for lack of this protein three-dimensional structure, its architecture is represented as repeating S1 domains. Number of these domains depends on the protein's length. Domain's quantity and its boundaries data are contained in the specialized databases, such as SMART, Pfam and PROSITE. However, for the same object these data may be very different. For search of domain's quantity and its boundaries, new approach, based on the analysis of dicted secondary structure (PsiPred), was used. This approach allowed us to reveal structural domains in amino acid sequences of S1 proteins and at that number varied from one to six. Alignment of S1 proteins, containing different domain's number, with the S1 RNAbinding domain of Escherichia coli PNPase elicited a fact that in family of ribosomal proteins SI one domain has maximal homology with S1 domain from PNPase. This conservative domain migrates along polypeptide chain and locates in proteins, containing different domain's number, according to specified pattern. In this domain as well in the S1 domain from PNPase, residues Phe-19, Phe-22, His-34, Asp-64 and Arg-68 are clustered on the surface and formed RNA binding site.

Unsupervised SBAS-DInSAR Processing of Space-borne SAR data for Earth Surface Displacement Time Series Generation

Science.gov (United States)

Casu, F.; de Luca, C.; Lanari, R.; Manunta, M.; Zinno, I.

2016-12-01

During the last 25 years, the Differential Synthetic Aperture Radar Interferometry (DInSAR) has played an important role for understanding the Earth's surface deformation and its dynamics. In particular, the large collections of SAR data acquired by a number of space-borne missions (ERS, ENVISAT, ALOS, RADARSAT, TerraSAR-X, COSMO-SkyMed) have pushed toward the development of advanced DInSAR techniques for monitoring the temporal evolution of the ground displacements with an high spatial density. Moreover, the advent of the Copernicus Sentinel-1 (S1) constellation is providing a further increase in the SAR data flow available to the Earth science community, due to its characteristics of global coverage strategy and free and open access data policy. Therefore, managing and storing such a huge amount of data, processing it in an effcient way and maximizing the available archives exploitation are becoming high priority issues. In this work we present some recent advances in the DInSAR field for dealing with the effective exploitation of the present and future SAR data archives. In particular, an efficient parallel SBAS implementation (namely P-SBAS) that takes benefit from high performance computing is proposed. Then, the P-SBAS migration to the emerging Cloud Computing paradigm is shown, together with extensive tests carried out in the Amazon's Elastic Cloud Compute (EC2) infrastructure. Finally, the integration of the P-SBAS processing chain within the ESA Geohazards Exploitation Platform (GEP), for setting up operational on-demand and systematic web tools, open to every user, aimed at automatically processing stacks of SAR data for the generation of SBAS displacement time series, is also illustrated. A number of experimental results obtained by using the ERS, ENVISAT and S1 data in areas characterized by volcanic, seismic and anthropogenic phenomena will be shown. This work is partially supported by: the DPC-CNR agreement, the EPOS-IP project and the ESA GEP project.

C-band Joint Active/Passive Dual Polarization Sea Ice Detection

Science.gov (United States)

Keller, M. R.; Gifford, C. M.; Winstead, N. S.; Walton, W. C.; Dietz, J. E.

2017-12-01

A technique for synergistically-combining high-resolution SAR returns with like-frequency passive microwave emissions to detect thin (Radar (SAR) is high resolution (5-100m) but because of cross section ambiguities automated algorithms have had difficulty separating thin ice types from water. The radiometric emissivity of thin ice versus water at microwave frequencies is generally unambiguous in the early stages of ice growth. The method, developed using RADARSAT-2 and AMSR-E data, uses higher-ordered statistics. For the SAR, the COV (coefficient of variation, ratio of standard deviation to mean) has fewer ambiguities between ice and water than cross sections, but breaking waves still produce ice-like signatures for both polarizations. For the radiometer, the PRIC (polarization ratio ice concentration) identifies areas that are unambiguously water. Applying cumulative statistics to co-located COV levels adaptively determines an ice/water threshold. Outcomes from extensive testing with Sentinel and AMSR-2 data are shown in the results. The detection algorithm was applied to the freeze-up in the Beaufort, Chukchi, Barents, and East Siberian Seas in 2015 and 2016, spanning mid-September to early November of both years. At the end of the melt, 6 GHz PRIC values are 5-10% greater than those reported by radiometric algorithms at 19 and 37 GHz. During freeze-up, COV separates grease ice (cross-pol/co-pol SAR ratio corrects for COV deficiencies. In general, the dual-sensor detection algorithm reports 10-15% higher total ice concentrations than operational scatterometer or radiometer algorithms, mostly from ice edge and coastal areas. In conclusion, the algorithm presented combines high-resolution SAR returns with passive microwave emissions for automated ice detection at SAR resolutions.

An 11-bit 200 MS/s subrange SAR ADC with low-cost integrated reference buffer

Science.gov (United States)

He, Xiuju; Gu, Xian; Li, Weitao; Jiang, Hanjun; Li, Fule; Wang, Zhihua

2017-10-01

This paper presents an 11-bit 200 MS/s subrange SAR ADC with an integrated reference buffer in 65 nm CMOS. The proposed ADC employs a 3.5-bit flash ADC for coarse conversion, and a compact timing scheme at the flash/SAR boundary to speed up the conversion. The flash decision is used to control charge compensating for the reference voltage to reduce its input-dependent fluctuation. Measurement results show that the fabricated ADC has achieved significant improvement by applying the reference charge compensation. In addition, the ADC achieves a maximum signal-to-noise-and-distortion ratio of 59.3 dB at 200 MS/s. It consumes 3.91 mW from a 1.2 V supply, including the reference buffer. Project supported by the Zhongxing Telecommunication Equipment Corporation and Beijing Microelectronics Technology Institute.

RAMP AMM-1 SAR Image Mosaic of Antarctica

Data.gov (United States)

National Aeronautics and Space Administration — In 1997, the Canadian RADARSAT-1 satellite was rotated in orbit so that its Synthetic Aperture Radar (SAR) antenna looked south towards Antarctica. This permitted...

Applications of Environmental Remote Sensing by HJ-1C SAR Imageries

Directory of Open Access Journals (Sweden)

Tian Wei

2014-06-01

Full Text Available The HJ-1C satellite was successfully launched in November 19, 2012. The HJ-1C and HJ-1A/1B satellites, which were launched in September 06, 2008, constitute the “2+1” small satellite constellation for environmental and disaster monitoring. This study focuses on the analysis and evaluation of the satellite performance with respect to environmental remote sensing, including land use interpretation, land cover classification, oil spill identification, retrieval of sea waves, and monitoring of coastal mariculture. The data used in this study cover the city of Beijing and the sea of the Fujian Province. Nine HJ-1C satellite images (level-2, S band, VV Pol, strip mode, 5 m resolution from December 2012 to January 2013 are used. The conclusions are as follows: (1 the HJ-1C SAR images can be used to manually identify farmland, woodland, roads, rivers, urban construction, and rural residential areas; (2 the accuracy of the automatic land cover classification increased significantly when the HJ-1C SAR and HJ-1B CCD fusion images are used; (3 the HJ-1C satellite can be used to identify oil spills, to invert wave parameters, and to extract information regarding inshore aquaculture.

Monitoring of surface deformation in open pit mine using DInSAR time-series: a case study in the N5W iron mine (Carajás, Brazil) using TerraSAR-X data

Science.gov (United States)

Mura, José C.; Paradella, Waldir R.; Gama, Fabio F.; Santos, Athos R.; Galo, Mauricio; Camargo, Paulo O.; Silva, Arnaldo Q.; Silva, Guilherme G.

2014-10-01

We present an investigation of surface deformation using Differential SAR Interferometry (DInSAR) time-series carried out in an active open pit iron mine, the N5W, located in the Carajás Mineral Province (Brazilian Amazon region), using 33 TerraSAR-X (TSX-1) scenes. This mine has presented a historical of instability and surface monitoring measurements over sectors of the mine (pit walls) have been done based on ground based radar. Two complementary approaches were used: the standard DInSAR configuration, as an early warning of the slope instability conditions, and the DInSAR timeseries analysis. In order to decrease the topographic phase error a high resolution DEM was generated based on a stereo GeoEye-1 pair. Despite the fact that a DinSAR contains atmospheric and topographic phase artifacts and noise, it was possible to detect deformation in some interferometric pairs, covering pit benches, road ramps and waste piles. The timeseries analysis was performed using the 31 interferometric pairs, which were selected based on the highest mean coherence of a stack of 107 interferograms, presenting less phase unwrapping errors. The time-series deformation was retrieved by the Least-Squares (LS) solution using an extension of the Singular Value Decomposition (SVD), with a set of additional weighted constrain on the acceleration deformation. The atmospheric phase artifacts were filtered in the space-time domain and the DEM height errors were estimated based on the normal baseline diversity. The DInSAR time-series investigation showed good results for monitoring surface displacement in the N5W mine located in a tropical rainforest environment, providing very useful information about the ground movement for alarm, planning and risk assessment.

Role of the sar locus of Staphylococcus aureus in induction of endocarditis in rabbits.

Science.gov (United States)

Cheung, A L; Yeaman, M R; Sullam, P M; Witt, M D; Bayer, A S

1994-05-01

A regulatory locus on the Staphylococcus aureus chromosome, designated sar, is involved in the expression of cell wall proteins, some of which are potentially important in the pathogenesis of endocarditis. For instance, mutant 11D2 (sar::Tn917LTV1) was found to bind substantially less to matrix proteins (i.e., fibrinogen and fibronectin) than parent strain DB. Remarkably, these two strains did not differ in other phenotypes considered important in the initiation of endocarditis (e.g., binding to platelets and resistance to platelet-derived microbicidal proteins). The isogenic pair were compared for pathogenicity in a rabbit endocarditis model. There were significant differences in infectivity rates between the two strains (71 and 88% for DB versus 17 and 42% for mutant 11D2 at inocula of 10(3) and 10(4) CFU, respectively). In early adherence studies, parent DB adhered substantially better than the mutant to valvular vegetations at an inoculum of 10(6) CFU (P = 0.05). Southern blot analysis of colonies indicated that the location of the Tn917LTV1 insert in mutant 11D2 remained stable after animal passage. In vitro adherence assays revealed that mutant 11D2 was less adherent to cultured human endothelium than parent DB. These studies suggest that the sar locus is involved in the initial adherence of S. aureus to the fibrin-platelet-endothelium matrix on damaged valvular endothelium.

Expression, purification, crystallization, data collection and preliminary biochemical characterization of methicillin-resistant Staphylococcus aureus Sar2028, an aspartate/tyrosine/phenylalanine pyridoxal-5′-phosphate-dependent aminotransferase

International Nuclear Information System (INIS)

Seetharamappa, Jaldappagari; Oke, Muse; Liu, Huanting; McMahon, Stephen A.; Johnson, Kenneth A.; Carter, Lester; Dorward, Mark; Zawadzki, Michal; Overton, Ian M.; Niekirk, C. A. Johannes van; Graham, Shirley; Botting, Catherine H.; Taylor, Garry L.; White, Malcolm F.; Barton, Geoffrey J.; Coote, Peter J.; Naismith, James H.

2007-01-01

As part of work on S. aureus, the crystallization of Sar2028, a protein that is upregulated in MRSA, is reported. Sar2028, an aspartate/tyrosine/phenylalanine pyridoxal-5′-phosphate-dependent aminotransferase with a molecular weight of 48 168 Da, was overexpressed in methicillin-resistant Staphylococcus aureus compared with a methicillin-sensitive strain. The protein was expressed in Escherichia coli, purified and crystallized. The protein crystallized in a primitive orthorhombic Laue group with unit-cell parameters a = 83.6, b = 91.3, c = 106.0 Å, α = β = γ = 90°. Analysis of the systematic absences along the three principal axes indicated the space group to be P2 1 2 1 2 1 . A complete data set was collected to 2.5 Å resolution

SEMICONDUCTOR INTEGRATED CIRCUITS A 10-bit 200-kS/s SAR ADC IP core for a touch screen SoC

Science.gov (United States)

Xingyuan, Tong; Yintang, Yang; Zhangming, Zhu; Wenfang, Sheng

2010-10-01

Based on a 5 MSBs (most-significant-bits)-plus-5 LSBs (least-significant-bits) C-R hybrid D/A conversion and low-offset pseudo-differential comparison approach, with capacitor array axially symmetric layout topology and resistor string low gradient mismatch placement method, an 8-channel 10-bit 200-kS/s SAR ADC (successive-approximation-register analog-to-digital converter) IP core for a touch screen SoC (system-on-chip) is implemented in a 0.18 μm 1P5M CMOS logic process. Design considerations for the touch screen SAR ADC are included. With a 1.8 V power supply, the DNL (differential non-linearity) and INL (integral non-linearity) of this converter are measured to be about 0.32 LSB and 0.81 LSB respectively. With an input frequency of 91 kHz at 200-kS/s sampling rate, the spurious-free dynamic range and effective-number-of-bits are measured to be 63.2 dB and 9.15 bits respectively, and the power is about 136 μW. This converter occupies an area of about 0.08 mm2. The design results show that it is very suitable for touch screen SoC applications.

Origin, diversity and maturation of human antiviral antibodies analyzed by high-throughput sequencing

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Ponraj ePrabakaran

2012-08-01

Full Text Available Our understanding of how antibodies are generated and function could help develop effective vaccines and antibody-based therapeutics against viruses such as HIV-1, SARS Coronavirus (CoV, and Hendra and Nipah viruses (henipaviruses. Although broadly neutralizing antibodies (bnAbs against the HIV-1 were observed in patients, elicitation of such bnAbs remains a major challenge when compared to other viral targets. We previously hypothesized that HIV-1 could have evolved a strategy to evade the immune system due to absent or very weak binding of germline antibodies to the conserved epitopes that may not be sufficient to initiate and/or maintain an effective immune response. To further explore our hypothesis, we used the 454 sequence analysis of a large naïve library of human IgM antibodies which had been used for selecting antibodies against SARS Coronavirus (CoV receptor-binding domain (RBD, and soluble G proteins (sG of Hendra and Nipah viruses (henipaviruses. We found that the human IgM repertoires from the 454 sequencing have diverse germline usages, recombination patterns, junction diversity and a lower extent of somatic mutation. In this study, we identified germline intermediates of antibodies specific to HIV-1 and other viruses as observed in normal individuals, and compared their genetic diversity and somatic mutation level along with available structural and functional data. Further computational analysis will provide framework for understanding the underlying genetic and molecular determinants related to maturation pathways of antiviral bnAbs that could be useful for applying novel approaches to the design of effective vaccine immunogens and antibody-based therapeutics.

A Methodology to Detect and Update Active Deformation Areas Based on Sentinel-1 SAR Images

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Anna Barra

2017-09-01

Full Text Available This work is focused on deformation activity mapping and monitoring using Sentinel-1 (S-1 data and the DInSAR (Differential Interferometric Synthetic Aperture Radar technique. The main goal is to present a procedure to periodically update and assess the geohazard activity (volcanic activity, landslides and ground-subsidence of a given area by exploiting the wide area coverage and the high coherence and temporal sampling (revisit time up to six days provided by the S-1 satellites. The main products of the procedure are two updatable maps: the deformation activity map and the active deformation areas map. These maps present two different levels of information aimed at different levels of geohazard risk management, from a very simplified level of information to the classical deformation map based on SAR interferometry. The methodology has been successfully applied to La Gomera, Tenerife and Gran Canaria Islands (Canary Island archipelago. The main obtained results are discussed.

Geodetic integration of Sentinel-1A IW data using PSInSAR in Hungary

Science.gov (United States)

Farkas, Péter; Hevér, Renáta; Grenerczy, Gyula

2015-04-01

ESA's latest Synthetic Aperture Radar (SAR) mission Sentinel-1 is a huge step forward in SAR interferometry. With its default acquisition mode called the Interferometric Wide Swath Mode (IW) areas through all scales can be mapped with an excellent return time of 12 days (while only the Sentinel-1A is in orbit). Its operational data policy is also a novelty, it allows scientific users free and unlimited access to data. It implements a new type of ScanSAR mode called Terrain Observation with Progressive Scan (TOPS) SAR. It has the same resolution as ScanSAR but with better signal-to-noise ratio distribution. The bigger coverage is achieved by rotation of the antenna in the azimuth direction, therefore it requires very precise co-registration because even errors under a pixel accuracy can introduce azimuth phase variations caused by differences in Doppler-centroids. In our work we will summarize the benefits and the drawbacks of the IW mode. We would like to implement the processing chain of GAMMA Remote Sensing of such data for mapping surface motion with special attention to the co-registration step. Not only traditional InSAR but the advanced method of Persistent Scatterer InSAR (PSInSAR) will be performed and presented as well. PS coverage, along with coherence, is expected to be good due to the small perpendicular and temporal baselines. We would also like to integrate these measurements into national geodetic networks using common reference points. We have installed trihedral corner reflectors at some selected sites to aid precise collocation. Thus, we aim to demonstrate that Sentinel-1 can be effectively used for surface movement detection and monitoring and it can also provide valuable information for the improvement of our networks.

The SARS-unique domain (SUD of SARS coronavirus contains two macrodomains that bind G-quadruplexes.

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Jinzhi Tan

2009-05-01

Full Text Available Since the outbreak of severe acute respiratory syndrome (SARS in 2003, the three-dimensional structures of several of the replicase/transcriptase components of SARS coronavirus (SARS-CoV, the non-structural proteins (Nsps, have been determined. However, within the large Nsp3 (1922 amino-acid residues, the structure and function of the so-called SARS-unique domain (SUD have remained elusive. SUD occurs only in SARS-CoV and the highly related viruses found in certain bats, but is absent from all other coronaviruses. Therefore, it has been speculated that it may be involved in the extreme pathogenicity of SARS-CoV, compared to other coronaviruses, most of which cause only mild infections in humans. In order to help elucidate the function of the SUD, we have determined crystal structures of fragment 389-652 ("SUD(core" of Nsp3, which comprises 264 of the 338 residues of the domain. Both the monoclinic and triclinic crystal forms (2.2 and 2.8 A resolution, respectively revealed that SUD(core forms a homodimer. Each monomer consists of two subdomains, SUD-N and SUD-M, with a macrodomain fold similar to the SARS-CoV X-domain. However, in contrast to the latter, SUD fails to bind ADP-ribose, as determined by zone-interference gel electrophoresis. Instead, the entire SUD(core as well as its individual subdomains interact with oligonucleotides known to form G-quadruplexes. This includes oligodeoxy- as well as oligoribonucleotides. Mutations of selected lysine residues on the surface of the SUD-N subdomain lead to reduction of G-quadruplex binding, whereas mutations in the SUD-M subdomain abolish it. As there is no evidence for Nsp3 entering the nucleus of the host cell, the SARS-CoV genomic RNA or host-cell mRNA containing long G-stretches may be targets of SUD. The SARS-CoV genome is devoid of G-stretches longer than 5-6 nucleotides, but more extended G-stretches are found in the 3'-nontranslated regions of mRNAs coding for certain host-cell proteins

Identification of herpesvirus proteins that contribute to G1/S arrest.

Science.gov (United States)

Paladino, Patrick; Marcon, Edyta; Greenblatt, Jack; Frappier, Lori

2014-04-01

Lytic infection by herpesviruses induces cell cycle arrest at the G1/S transition. This appears to be a function of multiple herpesvirus proteins, but only a minority of herpesvirus proteins have been examined for cell cycle effects. To gain a more comprehensive understanding of the viral proteins that contribute to G1/S arrest, we screened a library of over 200 proteins from herpes simplex virus type 1, human cytomegalovirus, and Epstein-Barr virus (EBV) for effects on the G1/S interface, using HeLa fluorescent, ubiquitination-based cell cycle indicator (Fucci) cells in which G1/S can be detected colorimetrically. Proteins from each virus were identified that induce accumulation of G1/S cells, predominantly tegument, early, and capsid proteins. The identification of several capsid proteins in this screen suggests that incoming viral capsids may function to modulate cellular processes. The cell cycle effects of selected EBV proteins were further verified and examined for effects on p53 and p21 as regulators of the G1/S transition. Two EBV replication proteins (BORF2 and BMRF1) were found to induce p53 but not p21, while a previously uncharacterized tegument protein (BGLF2) was found to induce p21 protein levels in a p53-independent manner. Proteomic analyses of BGLF2-interacting proteins identified interactions with the NIMA-related protein kinase (NEK9) and GEM-interacting protein (GMIP). Silencing of either NEK9 or GMIP induced p21 without affecting p53 and abrogated the ability of BGLF2 to further induce p21. Collectively, these results suggest multiple viral proteins contribute to G1/S arrest, including BGLF2, which induces p21 levels likely by interfering with the functions of NEK9 and GMIP. Most people are infected with multiple herpesviruses, whose proteins alter the infected cells in several ways. During lytic infection, the viral proteins block cell proliferation just before the cellular DNA replicates. We used a novel screening method to identify proteins

The Severe Acute Respiratory Syndrome (SARS-coronavirus 3a protein may function as a modulator of the trafficking properties of the spike protein

Directory of Open Access Journals (Sweden)

Tan Yee-Joo

2005-02-01

Full Text Available Abstract Background A recent publication reported that a tyrosine-dependent sorting signal, present in cytoplasmic tail of the spike protein of most coronaviruses, mediates the intracellular retention of the spike protein. This motif is missing from the spike protein of the severe acute respiratory syndrome-coronavirus (SARS-CoV, resulting in high level of surface expression of the spike protein when it is expressed on its own in vitro. Presentation of the hypothesis It has been shown that the severe acute respiratory syndrome-coronavirus genome contains open reading frames that encode for proteins with no homologue in other coronaviruses. One of them is the 3a protein, which is expressed during infection in vitro and in vivo. The 3a protein, which contains a tyrosine-dependent sorting signal in its cytoplasmic domain, is expressed on the cell surface and can undergo internalization. In addition, 3a can bind to the spike protein and through this interaction, it may be able to cause the spike protein to become internalized, resulting in a decrease in its surface expression. Testing the hypothesis The effects of 3a on the internalization of cell surface spike protein can be examined biochemically and the significance of the interplay between these two viral proteins during viral infection can be studied using reverse genetics methodology. Implication of the hypothesis If this hypothesis is proven, it will indicate that the severe acute respiratory syndrome-coronavirus modulates the surface expression of the spike protein via a different mechanism from other coronaviruses. The interaction between 3a and S, which are expressed from separate subgenomic RNA, would be important for controlling the trafficking properties of S. The cell surface expression of S in infected cells significantly impacts viral assembly, viral spread and viral pathogenesis. Modulation by this unique pathway could confer certain advantages during the replication of the severe

Bistatic SAR: Proof of Concept.

Energy Technology Data Exchange (ETDEWEB)

Yocky, David A.; Doren, Neall E.; Bacon, Terry A.; Wahl, Daniel E.; Eichel, Paul H.; Jakowatz, Charles V,; Delaplain, Gilbert G.; Dubbert, Dale F.; Tise, Bertice L.; White, Kyle R.

2014-10-01

Typical synthetic aperture RADAR (SAR) imaging employs a co-located RADAR transmitter and receiver. Bistatic SAR imaging separates the transmitter and receiver locations. A bistatic SAR configuration allows for the transmitter and receiver(s) to be in a variety of geometric alignments. Sandia National Laboratories (SNL) / New Mexico proposed the deployment of a ground-based RADAR receiver. This RADAR receiver was coupled with the capability of digitizing and recording the signal collected. SNL proposed the possibility of creating an image of targets the illuminating SAR observes. This document describes the developed hardware, software, bistatic SAR configuration, and its deployment to test the concept of a ground-based bistatic SAR. In the proof-of-concept experiments herein, the RADAR transmitter will be a commercial SAR satellite and the RADAR receiver will be deployed at ground level, observing and capturing RADAR ground/targets illuminated by the satellite system.

Identifying SARS-CoV membrane protein amino acid residues linked to virus-like particle assembly.

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Ying-Tzu Tseng

Full Text Available Severe acute respiratory syndrome coronavirus (SARS-CoV membrane (M proteins are capable of self-assembly and release in the form of membrane-enveloped vesicles, and of forming virus-like particles (VLPs when coexpressed with SARS-CoV nucleocapsid (N protein. According to previous deletion analyses, M self-assembly involves multiple M sequence regions. To identify important M amino acid residues for VLP assembly, we coexpressed N with multiple M mutants containing substitution mutations at the amino-terminal ectodomain, carboxyl-terminal endodomain, or transmembrane segments. Our results indicate that a dileucine motif in the endodomain tail (218LL219 is required for efficient N packaging into VLPs. Results from cross-linking VLP analyses suggest that the cysteine residues 63, 85 and 158 are not in close proximity to the M dimer interface. We noted a significant reduction in M secretion due to serine replacement for C158, but not for C63 or C85. Further analysis suggests that C158 is involved in M-N interaction. In addition to mutations of the highly conserved 107-SWWSFNPE-114 motif, substitutions at codons W19, W57, P58, W91, Y94 or F95 all resulted in significantly reduced VLP yields, largely due to defective M secretion. VLP production was not significantly affected by a tryptophan replacement of Y94 or F95 or a phenylalanine replacement of W19, W57 or W91. Combined, these results indicate the involvement of specific M amino acids during SARS-CoV virus assembly, and suggest that aromatic residue retention at specific positions is critical for M function in terms of directing virus assembly.

Solution structure of the c-terminal dimerization domain of SARS coronavirus nucleocapsid protein solved by the SAIL-NMR method.

Science.gov (United States)

Takeda, Mitsuhiro; Chang, Chung-ke; Ikeya, Teppei; Güntert, Peter; Chang, Yuan-hsiang; Hsu, Yen-lan; Huang, Tai-huang; Kainosho, Masatsune

2008-07-18

The C-terminal domain (CTD) of the severe acute respiratory syndrome coronavirus (SARS-CoV) nucleocapsid protein (NP) contains a potential RNA-binding region in its N-terminal portion and also serves as a dimerization domain by forming a homodimer with a molecular mass of 28 kDa. So far, the structure determination of the SARS-CoV NP CTD in solution has been impeded by the poor quality of NMR spectra, especially for aromatic resonances. We have recently developed the stereo-array isotope labeling (SAIL) method to overcome the size problem of NMR structure determination by utilizing a protein exclusively composed of stereo- and regio-specifically isotope-labeled amino acids. Here, we employed the SAIL method to determine the high-quality solution structure of the SARS-CoV NP CTD by NMR. The SAIL protein yielded less crowded and better resolved spectra than uniform (13)C and (15)N labeling, and enabled the homodimeric solution structure of this protein to be determined. The NMR structure is almost identical with the previously solved crystal structure, except for a disordered putative RNA-binding domain at the N-terminus. Studies of the chemical shift perturbations caused by the binding of single-stranded DNA and mutational analyses have identified the disordered region at the N-termini as the prime site for nucleic acid binding. In addition, residues in the beta-sheet region also showed significant perturbations. Mapping of the locations of these residues onto the helical model observed in the crystal revealed that these two regions are parts of the interior lining of the positively charged helical groove, supporting the hypothesis that the helical oligomer may form in solution.

Performance Analysis of Ship Wake Detection on Sentinel-1 SAR Images

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Maria Daniela Graziano

2017-10-01

Full Text Available A novel technique for ship wake detection has been recently proposed and applied on X-band Synthetic Aperture Radar images provided by COSMO/SkyMed and TerraSAR-X. The approach shows that the vast majority of wake features are correctly detected and validated in critical situations. In this paper, the algorithm was applied to 28 wakes imaged by Sentinel-1 mission with different polarizations and incidence angles with the aim of testing the method’s robustness with reference to radar frequency and resolution. The detection process is properly modified. The results show that the features were correctly classified in 78.5% of cases, whereas false confirmations occur mainly on Kelvin cusps. Finally, the results were compared with the algorithm performance on X-band images, showing that no significant difference arises. In fact, the total false confirmations rate was 15.8% on X-band images and 18.5% on C-band images. Moreover, since the main criticality concerns again the false confirmation of Kelvin cusps, the same empirical criterion suggested for the X-band SAR images yielded a negligible 1.5% of false detection rate.

Surface Deformation Observed by InSAR due to Fluid Injection: a Test Study in the Central U.S.

Science.gov (United States)

Deng, F.; Dixon, T. H.

2017-12-01

The central and eastern U.S. has undergone a dramatic increase in seismicity over the past few years. Many of these recent earthquakes were likely induced by human activities, with underground fluid injection for oil and gas extraction being one of the main contributors. Surface deformation caused by fluid injection has been captured by GPS and InSAR observations in several areas. For example, surface uplift of up to 10 cm due to CO2 injection between 2007 and 2011 was measured by InSAR at an enhanced oil recovery site in west Texas. We are using Texas and Oklahoma as test areas to analyze the potential relationship between surface deformation, underground fluid injection and induced earthquakes. C-band SAR data from ENVISAT and Sentinel-1, and L-band SAR data from ALOS and ALOS-2 are used to form decade-long time series. Based on the surface deformation derived from the time series InSAR data, subsurface volume change and volumetric strain in an elastic half space are estimated. Seismic data provided by the USGS are used to analyze the spatial and temporal distribution pattern of earthquakes, and the potential link between surface deformation and induced earthquakes. The trigger mechanism will be combined with forward modeling to predict seismicity and assess related hazard for future study.

Urban Monitoring Based on SENTINEL-1 Data Using Permanent Scatterer Interferometry and SAR Tomography

Science.gov (United States)

Crosetto, M.; Budillon, A.; Johnsy, A.; Schirinzi, G.; Devanthéry, N.; Monserrat, O.; Cuevas-González, M.

2018-04-01

A lot of research and development has been devoted to the exploitation of satellite SAR images for deformation measurement and monitoring purposes since Differential Interferometric Synthetic Apertura Radar (InSAR) was first described in 1989. In this work, we consider two main classes of advanced DInSAR techniques: Persistent Scatterer Interferometry and Tomographic SAR. Both techniques make use of multiple SAR images acquired over the same site and advanced procedures to separate the deformation component from the other phase components, such as the residual topographic component, the atmospheric component, the thermal expansion component and the phase noise. TomoSAR offers the advantage of detecting either single scatterers presenting stable proprieties over time (Persistent Scatterers) and multiple scatterers interfering within the same range-azimuth resolution cell, a significant improvement for urban areas monitoring. This paper addresses a preliminary inter-comparison of the results of both techniques, for a test site located in the metropolitan area of Barcelona (Spain), where interferometric Sentinel-1 data were analysed.

The InSAeS4 Airborne X-Band Interferometric SAR System: A First Assessment on Its Imaging and Topographic Mapping Capabilities

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Stefano Perna

2016-01-01

Full Text Available We present in this work a first assessment of the imaging and topographic mapping capabilities of the InSAeS4 system, which is a single-pass interferometric airborne X-Band Synthetic Aperture Radar (SAR. In particular, we first provide a brief description of the InSAeS4 sensor. Then, we discuss the results of our analysis on the SAR and interferometric SAR products relevant to the first flight-test campaign. More specifically, we have exploited as reference the GPS measurements relevant to nine Corner Reflectors (CRs deployed over the illuminated area during the campaign and a laser scanner Digital Elevation Model (DEM. From the analysis carried out on the CRs we achieved a mean geometric resolution, for the SAR products, of about 0.14 m in azimuth and 0.49 m in range, a positioning misalignment with standard deviation of 0.07 m in range and 0.08 m in azimuth, and a height error with standard deviation of 0.51 m. From the comparison with the laser scanner DEM we estimated a height error with standard deviation of 1.57 m.

SAR: Stroke Authorship Recognition

KAUST Repository

Shaheen, Sara

2015-10-15

Are simple strokes unique to the artist or designer who renders them? If so, can this idea be used to identify authorship or to classify artistic drawings? Also, could training methods be devised to develop particular styles? To answer these questions, we propose the Stroke Authorship Recognition (SAR) approach, a novel method that distinguishes the authorship of 2D digitized drawings. SAR converts a drawing into a histogram of stroke attributes that is discriminative of authorship. We provide extensive classification experiments on a large variety of data sets, which validate SAR\\'s ability to distinguish unique authorship of artists and designers. We also demonstrate the usefulness of SAR in several applications including the detection of fraudulent sketches, the training and monitoring of artists in learning a particular new style and the first quantitative way to measure the quality of automatic sketch synthesis tools. © 2015 The Eurographics Association and John Wiley & Sons Ltd.

Magnetic moment distribution in Co-V alloys

International Nuclear Information System (INIS)

Cable, J.W.

1982-01-01

Magnetization and neutron scattering measurements were made on Co-V alloys containing 10, 15, and 20 at.% V to determine the local environment effects on the magnetic moment distribution in this system. The magnetization data agree with earlier results and suggest the presence of some hcp phase in the 10% sample. This was confirmed by the neutron data which showed both fcc and hcp phases in an approximate 4:1 volume ratio for this alloy. The other two samples were single phase fcc but the 15% alloy was disordered while the 20% alloy was ordered in the Cu 3 Au-type structure with the maximum order consistent with the concentration. In this ordered alloy, the excess Co occupies the V sites. These ''wrong sited'' Co atoms have 12 Co nearest neighbors and larger magnetic moments than the ''properly sited'' Co atoms which have an average of 8.8 Co nearest neighbors. The average moments associated with these two types of sites were determined from flipping-ratio measurements on the superlattice and fundamental reflections. The values obtained are 0.28 μ/sub B//Co for the proper-site atoms and 1.3 μ/sub B//Co for the wrong-site atoms. Average moments at the Co and V sites were determined from the diffuse scattering for the 10% and 15% alloys. The results are 1.38 μ/sub B//Co and -0.26 μ/sub B//V for the 10% sample and 1.05 μ/sub B//Co and -0.11 μ/sub B//V for the 15% sample

Unconventional magnetic phase separation in γ -CoV2O6

Science.gov (United States)

Shen, L.; Jellyman, E.; Forgan, E. M.; Blackburn, E.; Laver, M.; Canévet, E.; Schefer, J.; He, Z.; Itoh, M.

2017-08-01

We have explored the magnetism in the nongeometrically frustrated spin-chain system γ -CoV2O6 which possesses a complex magnetic exchange network. Our neutron diffraction patterns at low temperatures (T ≤TN=6.6 K) are best described by a model in which two magnetic phases coexist in a volume ratio 65(1) : 35(1), with each phase consisting of a single spin modulation. This model fits previous studies and our observations better than the model proposed by Lenertz et al. [J. Phys. Chem. C 118, 13981 (2014), 10.1021/jp503389c], which consisted of one phase with two spin modulations. By decreasing the temperature from TN, the minority phase of our model undergoes an incommensurate-commensurate lock-in transition at T*=5.6 K. Based on these results, we propose that phase separation is an alternative approach for degeneracy-lifting in frustrated magnets.

Structures of Two Coronavirus Main Proteases: Implications for Substrate Binding and Antiviral Drug Design

Energy Technology Data Exchange (ETDEWEB)

Xue, Xiaoyu; Yu, Hongwei; Yang, Haitao; Xue, Fei; Wu, Zhixin; Shen, Wei; Li, Jun; Zhou, Zhe; Ding, Yi; Zhao, Qi; Zhang, Xuejun C.; Liao, Ming; Bartlam, Mark; Rao, Zihe (SCAU); (Tsinghua); (Chinese Aca. Sci.)

2008-07-21

Coronaviruses (CoVs) can infect humans and multiple species of animals, causing a wide spectrum of diseases. The coronavirus main protease (M{sup pro}), which plays a pivotal role in viral gene expression and replication through the proteolytic processing of replicase polyproteins, is an attractive target for anti-CoV drug design. In this study, the crystal structures of infectious bronchitis virus (IBV) MP{sup pro} and a severe acute respiratory syndrome CoV (SARS-CoV) M{sup pro} mutant (H41A), in complex with an N-terminal autocleavage substrate, were individually determined to elucidate the structural flexibility and substrate binding of M{sup pro}. A monomeric form of IBV M{sup pro} was identified for the first time in CoV M{sup pro} structures. A comparison of these two structures to other available M{sup pro} structures provides new insights for the design of substrate-based inhibitors targeting CoV M{sup pro}s. Furthermore, a Michael acceptor inhibitor (named N3) was cocrystallized with IBV M{sup pro} and was found to demonstrate in vitro inactivation of IBV M{sup pro} and potent antiviral activity against IBV in chicken embryos. This provides a feasible animal model for designing wide-spectrum inhibitors against CoV-associated diseases. The structure-based optimization of N3 has yielded two more efficacious lead compounds, N27 and H16, with potent inhibition against SARS-CoV M{sup pro}.

Dynamics of the coronavirus replicative structures

NARCIS (Netherlands)

Hagemeijer, M.C.

2011-01-01

Coronaviruses (CoV) are positive-strand RNA (+RNA) viruses that are important infectious agents in both animals and man. Upon infection, CoVs generate large multicomponent protein complexes, consisting of 16 nonstructural proteins (nsp’s) and yet to be identified cellular proteins, dedicated to the

A single-channel 10-bit 160 MS/s SAR ADC in 65 nm CMOS

International Nuclear Information System (INIS)

Lu Yuxiao; Sun Lu; Li Zhe; Zhou Jianjun

2014-01-01

This paper demonstrates a single-channel 10-bit 160 MS/s successive-approximation-register (SAR) analog-to-digital converter (ADC) in 65 nm CMOS process with a 1.2 V supply voltage. To achieve high speed, a new window-opening logic based on the asynchronous SAR algorithm is proposed to minimize the logic delay, and a partial set-and-down DAC with binary redundancy bits is presented to reduce the dynamic comparator offset and accelerate the DAC settling. Besides, a new bootstrapped switch with a pre-charge phase is adopted in the track and hold circuits to increase speed and reduce area. The presented ADC achieves 52.9 dB signal-to-noise distortion ratio and 65 dB spurious-free dynamic range measured with a 30 MHz input signal at 160 MHz clock. The power consumption is 9.5 mW and a core die area of 250 × 200 μm 2 is occupied. (semiconductor integrated circuits)

Middle East respiratory syndrome coronavirus (MERS Cov outbreak so far exempted Sub Saharan Africa; is it good news or call for action?

Directory of Open Access Journals (Sweden)

Ballah Akawu Denue

2015-01-01

Full Text Available The reported cases of MERS Cov in Arabian Peninsula and sporadic cases elsewhere except in sub Saharan Africa at present is disquieting considering its initial clinical feature that mimic flu like symptoms caused by other viruses. However MERS Cov is associated with organ dysfunction and high mortality. Although the mode of transmission is still unclear, it is postulated that it spreads through close contact, possibly via respiratory route. High similarities of MERS CoV carried by humans and camels may suggest that the diseases are zoonotic. Furthermore, airborne nosocomial transmission can occur in the room shared by the patients in the hospitals. There is still the confusion of transmission through body fluids or clinical samples, including stools and a cross transmission with medical devices or hands. Currently, all known cases can be directly or indirectly linked to Middle East from where it derives its name. Cases reported outside the Middle East first developed infection in the Middle East and then were exported outside the region. Several hospital-acquired outbreaks that resulted in upsurge of MERS Cov cases in Jeddah revealed lack of systematic implementation of infection prevention and control measures to effectively control emerging infectious diseases. The causative agent is detected and identified using Enzyme Linked Immuunosorbent Assay (ELISA and real-time polymerase chain reaction (RT-PCR that is expensive and not readily available in hospitals located in resource poor settings such as sub Saharan Africa. Although, so far no case of MERS Cov has been reported from sub Saharan Africa, the devastating consequences of MERS epidemic will be more catastrophic if it emerges in developing nations especially in sub Saharan Africa where there are no up to date facilities for investigations and management of such cases. Against this backdrop, we review this hazardous and incurable disease believing that it would create the necessary

Phi-s correlation and dynamic time warping - Two methods for tracking ice floes in SAR images

Science.gov (United States)

Mcconnell, Ross; Kober, Wolfgang; Kwok, Ronald; Curlander, John C.; Pang, Shirley S.

1991-01-01

The authors present two algorithms for performing shape matching on ice floe boundaries in SAR (synthetic aperture radar) images. These algorithms quickly produce a set of ice motion and rotation vectors that can be used to guide a pixel value correlator. The algorithms match a shape descriptor known as the Phi-s curve. The first algorithm uses normalized correlation to match the Phi-s curves, while the second uses dynamic programming to compute an elastic match that better accommodates ice floe deformation. Some empirical data on the performance of the algorithms on Seasat SAR images are presented.

Transient oligomerization of the SARS-CoV N protein--implication for virus ribonucleoprotein packaging.

Science.gov (United States)

Chang, Chung-ke; Chen, Chia-Min Michael; Chiang, Ming-hui; Hsu, Yen-lan; Huang, Tai-huang

2013-01-01

The nucleocapsid (N) phosphoprotein of the severe acute respiratory syndrome coronavirus (SARS-CoV) packages the viral genome into a helical ribonucleocapsid and plays a fundamental role during viral self-assembly. The N protein consists of two structural domains interspersed between intrinsically disordered regions and dimerizes through the C-terminal structural domain (CTD). A key activity of the protein is the ability to oligomerize during capsid formation by utilizing the dimer as a building block, but the structural and mechanistic bases of this activity are not well understood. By disulfide trapping technique we measured the amount of transient oligomers of N protein mutants with strategically located cysteine residues and showed that CTD acts as a primary transient oligomerization domain in solution. The data is consistent with the helical oligomer packing model of N protein observed in crystal. A systematic study of the oligomerization behavior revealed that altering the intermolecular electrostatic repulsion through changes in solution salt concentration or phosphorylation-mimicking mutations affects oligomerization propensity. We propose a biophysical mechanism where electrostatic repulsion acts as a switch to regulate N protein oligomerization.

Identification of two critical amino acid residues of the severe acute respiratory syndrome coronavirus spike protein for its variation in zoonotic tropism transition via a double substitution strategy.

Science.gov (United States)

Qu, Xiu-Xia; Hao, Pei; Song, Xi-Jun; Jiang, Si-Ming; Liu, Yan-Xia; Wang, Pei-Gang; Rao, Xi; Song, Huai-Dong; Wang, Sheng-Yue; Zuo, Yu; Zheng, Ai-Hua; Luo, Min; Wang, Hua-Lin; Deng, Fei; Wang, Han-Zhong; Hu, Zhi-Hong; Ding, Ming-Xiao; Zhao, Guo-Ping; Deng, Hong-Kui

2005-08-19

Severe acute respiratory syndrome coronavirus (SARS-CoV) is a recently identified human coronavirus. The extremely high homology of the viral genomic sequences between the viruses isolated from human (huSARS-CoV) and those of palm civet origin (pcSARS-CoV) suggested possible palm civet-to-human transmission. Genetic analysis revealed that the spike (S) protein of pcSARS-CoV and huSARS-CoV was subjected to the strongest positive selection pressure during transmission, and there were six amino acid residues within the receptor-binding domain of the S protein being potentially important for SARS progression and tropism. Using the single-round infection assay, we found that a two-amino acid substitution (N479K/T487S) of a huSARS-CoV for those of pcSARS-CoV almost abolished its infection of human cells expressing the SARS-CoV receptor ACE2 but no effect upon the infection of mouse ACE2 cells. Although single substitution of these two residues had no effects on the infectivity of huSARS-CoV, these recombinant S proteins bound to human ACE2 with different levels of reduced affinity, and the two-amino acid-substituted S protein showed extremely low affinity. On the contrary, substitution of these two amino acid residues of pcSARS-CoV for those of huSRAS-CoV made pcSARS-CoV capable of infecting human ACE2-expressing cells. These results suggest that amino acid residues at position 479 and 487 of the S protein are important determinants for SARS-CoV tropism and animal-to-human transmission.

Relationship between post-SARS osteonecrosis and PAI-1 4G/5G gene polymorphisms.

Science.gov (United States)

Sun, Wei; Li, Zirong; Shi, Zhengcai; Wang, Bailiang; Gao, Fuqiang; Yang, Yurun; Guo, Wanshou

2014-05-01

To explore the correlation between post-severe acute respiratory symptom (SARS) patients with osteonecrosis, investigate the etiology of post-SARS osteonecrosis and select the sensitive molecular symbols for early diagnosis and distinguish the high-risk population. The studied subjects were divided into two groups. Sixty-two post-SARS patients with osteonecrosis were one group, and 52 age- and sex-matched healthy people were as normal controlled group. Empty stomach blood samples from cubital veins were collected from both groups. Plasminogen activator inhibitor (PAI) by means of enzyme-linked immunosorbent assay and PAI-1 4G/5G polymorphism was detected by polymerase chain reaction and solid phase oligonucleotide assay. The blood agents of post-SARS patients changed obviously with 15.64 ± 13.85 U/ml while the control group 7.96 ± 4.27 U/ml; 4G/4G genotype for the PAI-1 polymorphism detected in post-SARS group was more than that of the control group, but had no statistical significance. The plasma PAI activity was related to homozygote 4G/4G genotype. This reveals that homozygote 4G/4G genotype may be a susceptible gene mark to Chinese osteonecrosis patients. Plasminogen activator inhibitor-1 is sensitive blood symbol for screening high-risk susceptible population; 4G/4G PAI-1 genotype may be an etiological factor in osteonecrosis.

Vaccine efficacy in senescent mice challenged with recombinant SARS-CoV bearing epidemic and zoonotic spike variants.

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Damon Deming

2006-12-01

Full Text Available In 2003, severe acute respiratory syndrome coronavirus (SARS-CoV was identified as the etiological agent of severe acute respiratory syndrome, a disease characterized by severe pneumonia that sometimes results in death. SARS-CoV is a zoonotic virus that crossed the species barrier, most likely originating from bats or from other species including civets, raccoon dogs, domestic cats, swine, and rodents. A SARS-CoV vaccine should confer long-term protection, especially in vulnerable senescent populations, against both the 2003 epidemic strains and zoonotic strains that may yet emerge from animal reservoirs. We report the comprehensive investigation of SARS vaccine efficacy in young and senescent mice following homologous and heterologous challenge.Using Venezuelan equine encephalitis virus replicon particles (VRP expressing the 2003 epidemic Urbani SARS-CoV strain spike (S glycoprotein (VRP-S or the nucleocapsid (N protein from the same strain (VRP-N, we demonstrate that VRP-S, but not VRP-N vaccines provide complete short- and long-term protection against homologous strain challenge in young and senescent mice. To test VRP vaccine efficacy against a heterologous SARS-CoV, we used phylogenetic analyses, synthetic biology, and reverse genetics to construct a chimeric virus (icGDO3-S encoding a synthetic S glycoprotein gene of the most genetically divergent human strain, GDO3, which clusters among the zoonotic SARS-CoV. icGD03-S replicated efficiently in human airway epithelial cells and in the lungs of young and senescent mice, and was highly resistant to neutralization with antisera directed against the Urbani strain. Although VRP-S vaccines provided complete short-term protection against heterologous icGD03-S challenge in young mice, only limited protection was seen in vaccinated senescent animals. VRP-N vaccines not only failed to protect from homologous or heterologous challenge, but resulted in enhanced immunopathology with eosinophilic

Estimating Velocities of Glaciers Using Sentinel-1 SAR Imagery

Science.gov (United States)

Gens, R.; Arnoult, K., Jr.; Friedl, P.; Vijay, S.; Braun, M.; Meyer, F. J.; Gracheva, V.; Hogenson, K.

2017-12-01

In an international collaborative effort, software has been developed to estimate the velocities of glaciers by using Sentinel-1 Synthetic Aperture Radar (SAR) imagery. The technique, initially designed by the University of Erlangen-Nuremberg (FAU), has been previously used to quantify spatial and temporal variabilities in the velocities of surging glaciers in the Pakistan Karakoram. The software estimates surface velocities by first co-registering image pairs to sub-pixel precision and then by estimating local offsets based on cross-correlation. The Alaska Satellite Facility (ASF) at the University of Alaska Fairbanks (UAF) has modified the software to make it more robust and also capable of migration into the Amazon Cloud. Additionally, ASF has implemented a prototype that offers the glacier tracking processing flow as a subscription service as part of its Hybrid Pluggable Processing Pipeline (HyP3). Since the software is co-located with ASF's cloud-based Sentinel-1 archive, processing of large data volumes is now more efficient and cost effective. Velocity maps are estimated for Single Look Complex (SLC) SAR image pairs and a digital elevation model (DEM) of the local topography. A time series of these velocity maps then allows the long-term monitoring of these glaciers. Due to the all-weather capabilities and the dense coverage of Sentinel-1 data, the results are complementary to optically generated ones. Together with the products from the Global Land Ice Velocity Extraction project (GoLIVE) derived from Landsat 8 data, glacier speeds can be monitored more comprehensively. Examples from Sentinel-1 SAR-derived results are presented along with optical results for the same glaciers.

Circum-Arctic Changes in the Flow of Glaciers and Ice Caps from Satellite SAR Data between the 1990s and 2017

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Tazio Strozzi

2017-09-01

Full Text Available We computed circum-Arctic surface velocity maps of glaciers and ice caps over the Canadian Arctic, Svalbard and the Russian Arctic for at least two times between the 1990s and 2017 using satellite SAR data. Our analyses are mainly performed with offset-tracking of ALOS-1 PALSAR-1 (2007–2011 and Sentinel-1 (2015–2017 data. In certain cases JERS-1 SAR (1994–1998, TerraSAR-X (2008–2012, Radarsat-2 (2009–2016 and ALOS-2 PALSAR-2 (2015–2016 data were used to fill-in spatial or temporal gaps. Validation of the latest Sentinel-1 results was accomplished by means of SAR data at higher spatial resolution (Radarsat-2 Wide Ultra Fine and ground-based measurements. In general, we observe a deceleration of flow velocities for the major tidewater glaciers in the Canadian Arctic and an increase in frontal velocity along with a retreat of frontal positions over Svalbard and the Russian Arctic. However, all regions have strong accelerations for selected glaciers. The latter developments can be well traced based on the very high temporal sampling of Sentinel-1 acquisitions since 2015, revealing new insights in glacier dynamics. For example, surges on Spitsbergen (e.g., Negribreen, Nathorsbreen, Penckbreen and Strongbreen have a different characteristic and timing than those over Eastern Austfonna and Edgeoya (e.g., Basin 3, Basin 2 and Stonebreen. Events similar to those ongoing on Eastern Austofonna were also observed over the Vavilov Ice Cap on Severnaya Zemlya and possibly Simony Glacier on Franz-Josef Land. Collectively, there seems to be a recently increasing number of glaciers with frontal destabilization over Eastern Svalbard and the Russian Arctic compared to the 1990s.

Staphylococcus aureus sarA regulates inflammation and colonization during central nervous system biofilm formation.

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Jessica N Snowden

Full Text Available Infection is a frequent and serious complication following the treatment of hydrocephalus with CSF shunts, with limited therapeutic options because of biofilm formation along the catheter surface. Here we evaluated the possibility that the sarA regulatory locus engenders S. aureus more resistant to immune recognition in the central nervous system (CNS based on its reported ability to regulate biofilm formation. We utilized our established model of CNS catheter-associated infection, similar to CSF shunt infections seen in humans, to compare the kinetics of bacterial titers, cytokine production and inflammatory cell influx elicited by wild type S. aureus versus an isogenic sarA mutant. The sarA mutant was more rapidly cleared from infected catheters compared to its isogenic wild type strain. Consistent with this finding, several pro-inflammatory cytokines and chemokines, including IL-17, CXCL1, and IL-1β were significantly increased in the brain following infection with the sarA mutant versus wild type S. aureus, in agreement with the fact that the sarA mutant displayed impaired biofilm growth and favored a planktonic state. Neutrophil influx into the infected hemisphere was also increased in the animals infected with the sarA mutant compared to wild type bacteria. These changes were not attributable to extracellular protease activity, which is increased in the context of SarA mutation, since similar responses were observed between sarA and a sarA/protease mutant. Overall, these results demonstrate that sarA plays an important role in attenuating the inflammatory response during staphylococcal biofilm infection in the CNS via a mechanism that remains to be determined.

Évaluation des esters méthyliques de tournesol isomérisés comme substitut de solvants (COV dans le domaine des peintures et vernis et assimilés

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Chiên Hoang Lê

2003-09-01

Full Text Available L’étude a été consacrée à l’évaluation des performances techniques d’esters méthyliques isomérisés dans des applications ciblées de l’industrie des peintures et vernis où les solvants à remplacer sont des composés organiques volatils en grandes proportions, ce sont : les lasures (55 à 65 %, les vernis (45 à 55 %, les peintures laquées (35 à 40 %, les peintures satinées (40 à 45 % et les peintures anticorrosion (30 à 40 % de COV. Les esters méthyliques étudiés sont : -- les esters méthyliques de tournesol classique isomérisés cis-trans, -- les esters méthyliques de tournesol classique isomérisés trans-trans. Les résultats de cette étude ont démontré que les esters méthyliques conjugués de tournesol classique peuvent remplacer les solvants organiques volatils (white spirit par exemple des peintures murales (brillantes et satinées et des lasures. Ces esters jouent non seulement le rôle de solvant mais aussi celui d’un réactif de siccativation. En effet, ils participent à la formation du film de peinture ou de lasure au cours du séchage. En formulation de vernis et de lasures, les résultats montrent qu’il est possible d’incorporer des taux d’esters méthyliques de tournesol conjugués à hauteur de 10 %, ce qui permet de ramener le taux de COV de 550-650 g\\\\l à moins de 400 g\\\\l. En formulation de peintures laquées, la performance des esters méthyliques dépend non seulement du type de laque étudiée « brillante » ou « satinée » et surtout du système résine\\\\ETI (Esters de Tournesol Isomérisés. Les esters méthyliques conjugués peuvent être utilisés plus favorablement dans les laques brillantes, jusqu’à une concentration de 2,5 % en substitution des solvants hydrocarbonés habituels (white spirit D40 ou D60. Ils permettent dans ce cas d’augmenter sensiblement l’extrait sec, tout en restant conforme aux objectifs fixés par le CEPE pour les

Project SFR 1 SAR-08. Update of priority of FEPs from Project SAFE

International Nuclear Information System (INIS)

Gordon, Anna; Loefgren, Martin; Lindgren, Maria

2008-03-01

SFR 1 is a repository for final disposal of low and intermediate level radioactive waste produced at Swedish nuclear power plants, as well as at Swedish industrial, research, and medical treatment facilities. The repository obtained operational license in March 1988. The aim of Project SFR 1 SAR-08 is to perform an updated safety analysis, according to requirements in the regulations. A major difference between this and previous safety analyses is that repository safety should be demonstrated for 100,000 years after repository closure. This should be compared with the time frame of the safety assessment in Project SAFE that was 10,000 years. Due to the extended time frame, permafrost and glaciation have to be considered in the reference evolution of Project SFR 1 SAR-08. Other rationales for the update are recent input from the authorities concerning SAFE documents and the SFR 1 repository, as well as new data concerning the SFR 1 inventory. This report describes the outcome of revisiting the qualitative FEP (Features, Events and Processes) analysis carried out within Project SAFE for the SFR 1 repository. Each and every interaction definition, as defined in SAFE, has been examined with the aim at assuring that the SAFE interaction matrices are also applicable for SAR-08. It was found that this is generally the case, but seven new interactions were defined in order to make the interaction matrices more applicable for SAR-08. The priority of all interactions assigned priority 1 and many interactions assigned priority 2 in SAFE have been carefully examined. The examination has been made in the context of the general initial and boundary conditions that should also form the basis for the SAR-08 main scenario and less probable scenarios. In 48 cases, the priority of the interaction needed upgrading, compared to in SAFE. In a majority of these cases, the upgrade is due to the extended time frame of the safety assessment, from 10,000 years in SAFE to 100,000 years in SAR

Project SFR 1 SAR-08. Update of priority of FEPs from Project SAFE

Energy Technology Data Exchange (ETDEWEB)

Gordon, Anna (Swedish Nuclear Fuel and Waste Management Co., Stockholm (SE)); Loefgren, Martin; Lindgren, Maria (Kemakta Konsult AB, Stockholm (SE)) (eds.)

2008-03-15

SFR 1 is a repository for final disposal of low and intermediate level radioactive waste produced at Swedish nuclear power plants, as well as at Swedish industrial, research, and medical treatment facilities. The repository obtained operational license in March 1988. The aim of Project SFR 1 SAR-08 is to perform an updated safety analysis, according to requirements in the regulations. A major difference between this and previous safety analyses is that repository safety should be demonstrated for 100,000 years after repository closure. This should be compared with the time frame of the safety assessment in Project SAFE that was 10,000 years. Due to the extended time frame, permafrost and glaciation have to be considered in the reference evolution of Project SFR 1 SAR-08. Other rationales for the update are recent input from the authorities concerning SAFE documents and the SFR 1 repository, as well as new data concerning the SFR 1 inventory. This report describes the outcome of revisiting the qualitative FEP (Features, Events and Processes) analysis carried out within Project SAFE for the SFR 1 repository. Each and every interaction definition, as defined in SAFE, has been examined with the aim at assuring that the SAFE interaction matrices are also applicable for SAR-08. It was found that this is generally the case, but seven new interactions were defined in order to make the interaction matrices more applicable for SAR-08. The priority of all interactions assigned priority 1 and many interactions assigned priority 2 in SAFE have been carefully examined. The examination has been made in the context of the general initial and boundary conditions that should also form the basis for the SAR-08 main scenario and less probable scenarios. In 48 cases, the priority of the interaction needed upgrading, compared to in SAFE. In a majority of these cases, the upgrade is due to the extended time frame of the safety assessment, from 10,000 years in SAFE to 100,000 years in SAR

Project SFR 1 SAR-08. Update of priority of FEPs from Project SAFE

Energy Technology Data Exchange (ETDEWEB)

Gordon, Anna [Swedish Nuclear Fuel and Waste Management Co., Stockholm (SE); Loefgren, Martin; Lindgren, Maria [Kemakta Konsult AB, Stockholm (SE); eds.

2008-03-15

SFR 1 is a repository for final disposal of low and intermediate level radioactive waste produced at Swedish nuclear power plants, as well as at Swedish industrial, research, and medical treatment facilities. The repository obtained operational license in March 1988. The aim of Project SFR 1 SAR-08 is to perform an updated safety analysis, according to requirements in the regulations. A major difference between this and previous safety analyses is that repository safety should be demonstrated for 100,000 years after repository closure. This should be compared with the time frame of the safety assessment in Project SAFE that was 10,000 years. Due to the extended time frame, permafrost and glaciation have to be considered in the reference evolution of Project SFR 1 SAR-08. Other rationales for the update are recent input from the authorities concerning SAFE documents and the SFR 1 repository, as well as new data concerning the SFR 1 inventory. This report describes the outcome of revisiting the qualitative FEP (Features, Events and Processes) analysis carried out within Project SAFE for the SFR 1 repository. Each and every interaction definition, as defined in SAFE, has been examined with the aim at assuring that the SAFE interaction matrices are also applicable for SAR-08. It was found that this is generally the case, but seven new interactions were defined in order to make the interaction matrices more applicable for SAR-08. The priority of all interactions assigned priority 1 and many interactions assigned priority 2 in SAFE have been carefully examined. The examination has been made in the context of the general initial and boundary conditions that should also form the basis for the SAR-08 main scenario and less probable scenarios. In 48 cases, the priority of the interaction needed upgrading, compared to in SAFE. In a majority of these cases, the upgrade is due to the extended time frame of the safety assessment, from 10,000 years in SAFE to 100,000 years in SAR

A Cloud-Based System for Automatic Hazard Monitoring from Sentinel-1 SAR Data

Science.gov (United States)

Meyer, F. J.; Arko, S. A.; Hogenson, K.; McAlpin, D. B.; Whitley, M. A.

2017-12-01

Despite the all-weather capabilities of Synthetic Aperture Radar (SAR), and its high performance in change detection, the application of SAR for operational hazard monitoring was limited in the past. This has largely been due to high data costs, slow product delivery, and limited temporal sampling associated with legacy SAR systems. Only since the launch of ESA's Sentinel-1 sensors have routinely acquired and free-of-charge SAR data become available, allowing—for the first time—for a meaningful contribution of SAR to disaster monitoring. In this paper, we present recent technical advances of the Sentinel-1-based SAR processing system SARVIEWS, which was originally built to generate hazard products for volcano monitoring centers. We outline the main functionalities of SARVIEWS including its automatic database interface to Sentinel-1 holdings of the Alaska Satellite Facility (ASF), and its set of automatic processing techniques. Subsequently, we present recent system improvements that were added to SARVIEWS and allowed for a vast expansion of its hazard services; specifically: (1) In early 2017, the SARVIEWS system was migrated into the Amazon Cloud, providing access to cloud capabilities such as elastic scaling of compute resources and cloud-based storage; (2) we co-located SARVIEWS with ASF's cloud-based Sentinel-1 archive, enabling the efficient and cost effective processing of large data volumes; (3) we integrated SARVIEWS with ASF's HyP3 system (http://hyp3.asf.alaska.edu/), providing functionality such as subscription creation via API or map interface as well as automatic email notification; (4) we automated the production chains for seismic and volcanic hazards by integrating SARVIEWS with the USGS earthquake notification service (ENS) and the USGS eruption alert system. Email notifications from both services are parsed and subscriptions are automatically created when certain event criteria are met; (5) finally, SARVIEWS-generated hazard products are now

Subsidence Monitoring in Seville (S Spain) Using Multi-Temporal InSAR

Science.gov (United States)

Ruiz-Armenteros, Antonio M.; Ruiz-Constan, Ana; Lamas-Fernandez, Francisco; Galindo-Zaldivar, Jesus; Sousa, Joaquim J.; Sanz de Galdeano, Carlos; Delgado, Manuel J.; Pedrera-Parias, Antonio; Martos-Rosillo, Sergio; Gil, Antonio J.; Caro-Cuenca, Miguel; Hanssen, Ramon F.

2016-08-01

Seville, with a metropolitan population of about 1.5 million, is the capital and largest city of Andalusia (S Spain). It is the 30th most populous municipality in the European Union and contains three UNESCO World Heritage Sites. The Seville harbour, located about 80 km from the Atlantic Ocean, is the only river port in Spain. The city is located on the plain of the Guadalquivir River. Using Multi-Temporal InSAR with ERS-1/2 and Envisat data a subsidence behavior is detected in the period 1992-2010. The geometry of the subsiding areas suggests that it should be conditioned by the fluvial dynamics of the Guadalquivir River and its tributaries. Facies distribution along the fluvial system (paleochannels, flood plains...), with different grain size and matrix proportion, may explain the relative subsidence between the different sectors.

Transient oligomerization of the SARS-CoV N protein--implication for virus ribonucleoprotein packaging.

Directory of Open Access Journals (Sweden)

Chung-ke Chang

Full Text Available The nucleocapsid (N phosphoprotein of the severe acute respiratory syndrome coronavirus (SARS-CoV packages the viral genome into a helical ribonucleocapsid and plays a fundamental role during viral self-assembly. The N protein consists of two structural domains interspersed between intrinsically disordered regions and dimerizes through the C-terminal structural domain (CTD. A key activity of the protein is the ability to oligomerize during capsid formation by utilizing the dimer as a building block, but the structural and mechanistic bases of this activity are not well understood. By disulfide trapping technique we measured the amount of transient oligomers of N protein mutants with strategically located cysteine residues and showed that CTD acts as a primary transient oligomerization domain in solution. The data is consistent with the helical oligomer packing model of N protein observed in crystal. A systematic study of the oligomerization behavior revealed that altering the intermolecular electrostatic repulsion through changes in solution salt concentration or phosphorylation-mimicking mutations affects oligomerization propensity. We propose a biophysical mechanism where electrostatic repulsion acts as a switch to regulate N protein oligomerization.

Upscaling the impact of convective overshooting (COV) through BRAMS: a continental and wet-season scale study of the water vapour (WV) budget in the tropical tropopause layer (TTL).

Science.gov (United States)

Behera, Abhinna; Rivière, Emmanuel; Marécal, Virginie; Rysman, Jean-François; Claud, Chantal; Burgalat, Jérémie

2017-04-01

The stratospheric water vapour (WV) has a conceding impact on the radiative and chemical budget of Earth's atmosphere. The convective overshooting (COV) at the tropics is well admitted for playing a role in transporting directly WV to the stratosphere. Nonetheless, its impact on the lower stratosphere is yet to be determined at global scale, as the satellite and other air-borne measurements are not of having fine enough resolution to quantify this impact at large scale. Therefore, efforts have been made to quantify the influence of COV over the WV budget in the tropical tropopause layer (TTL) through modelling. Our approach is to build two synthetic tropical wet-seasons; where one would be having only deep convection (DC) but no COV at all, and the second one would be having the COV, and in both cases the WV budget in the TTL would be estimated. Before that, a French-Brazilian TRO-pico campaign was carried out at Bauru, Brazil in order to understand the influence of COV on the WV budget in the TTL. The radio-sounding, and the small balloon-borne WV measurements from the campaign are being utilized to validate the model simulation. Brazilian version of Regional Atmospheric Modeling System (BRAMS) is used with a single grid system to simulate a WV variability in a wet-season. Grell's convective parameterization with ensemble closure, microphysics with double moment scheme and 7 types of hydrometeors are incorporated to simulate the WV variability for a wet-season at the tropics. The grid size of simulation is chosen to be 20 km x 20 km horizontally and from surface to 30 km altitude, so that there cannot be COV at all, only DC due to such a relatively coarse resolution. The European Centre for Medium-range Weather Forecasts (ECMWF) operational analyses data are used every 6 hours for grid initialization and boundary conditions, and grid center nudging. The simulation is carried out for a full wet-season (Nov 2012 - Mar 2013) at Brazilian scale, so that it would

Assessing ScanSAR Interferometry for Deformation Studies

Science.gov (United States)

Buckley, S. M.; Gudipati, K.

2007-12-01

There is a trend in civil satellite SAR mission design to implement an imaging strategy that incorporates both stripmap mode and ScanSAR imaging. This represents a compromise between high resolution data collection and a desire for greater spatial coverage and more frequent revisit times. However, mixed mode imaging can greatly reduce the number of stripmap images available for measuring subtle ground deformation. Although ScanSAR-ScanSAR and ScanSAR-stripmap repeat-pass interferometry have been demonstrated, these approaches are infrequently used for single interferogram formation and nonexistent for InSAR time series analysis. For future mission design, e.g., a dedicated US InSAR mission, the effect of various ScanSAR system parameter choices on InSAR time series analysis also remains unexplored. Our objective is to determine the utility of ScanSAR differential interferometry. We will demonstrate the use of ScanSAR interferograms for several previous deformation studies: localized and broad-scale urban land subsidence, tunneling, volcanic surface movements and several examples associated with the seismic cycle. We also investigate the effect of various ScanSAR burst synchronization levels on our ability to detect and make quality measurements of deformation. To avoid the issues associated with Envisat ScanSAR burst alignment and to exploit a decade of InSAR measurements, we simulate ScanSAR data by bursting (throwing away range lines of) ERS-1/2 data. All the burst mode datasets are processed using a Modified SPECAN algorithm. To investigate the effects of burst misalignment, a number of cases with varying degrees of burst overlap are considered. In particular, we look at phase decorrelation as a function of percentage of burst overlap. Coherence clearly reduces as the percentage of overlap decreases and we find a useful threshold of 40-70% burst overlap depending on the study site. In order to get a more generalized understanding for different surface conditions

Insecticide resistance profile of Anopheles gambiae from a phase II field station in Cové, southern Benin: implications for the evaluation of novel vector control products.

Science.gov (United States)

Ngufor, Corine; N'Guessan, Raphael; Fagbohoun, Josias; Subramaniam, Krishanthi; Odjo, Abibatou; Fongnikin, Augustin; Akogbeto, Martin; Weetman, David; Rowland, Mark

2015-11-18

Novel indoor residual spraying (IRS) and long-lasting insecticidal net (LLIN) products aimed at improving the control of pyrethroid-resistant malaria vectors have to be evaluated in Phase II semi-field experimental studies against highly pyrethroid-resistant mosquitoes. To better understand their performance it is necessary to fully characterize the species composition, resistance status and resistance mechanisms of the vector populations in the experimental hut sites. Bioassays were performed to assess phenotypic insecticide resistance in the malaria vector population at a newly constructed experimental hut site in Cové, a rice growing area in southern Benin, being used for WHOPES Phase II evaluation of newly developed LLIN and IRS products. The efficacy of standard WHOPES-approved pyrethroid LLIN and IRS products was also assessed in the experimental huts. Diagnostic genotyping techniques and microarray studies were performed to investigate the genetic basis of pyrethroid resistance in the Cové Anopheles gambiae population. The vector population at the Cové experimental hut site consisted of a mixture of Anopheles coluzzii and An. gambiae s.s. with the latter occurring at lower frequencies (23 %) and only in samples collected in the dry season. There was a high prevalence of resistance to pyrethroids and DDT (>90 % bioassay survival) with pyrethroid resistance intensity reaching 200-fold compared to the laboratory susceptible An. gambiae Kisumu strain. Standard WHOPES-approved pyrethroid IRS and LLIN products were ineffective in the experimental huts against this vector population (8-29 % mortality). The L1014F allele frequency was 89 %. CYP6P3, a cytochrome P450 validated as an efficient metabolizer of pyrethroids, was over-expressed. Characterizing pyrethroid resistance at Phase II field sites is crucial to the accurate interpretation of the performance of novel vector control products. The strong levels of pyrethroid resistance at the Cové experimental hut

The Sentinel-3 Surface Topography Mission (S-3 STM): Level 2 SAR Ocean Retracker

Science.gov (United States)

Dinardo, S.; Lucas, B.; Benveniste, J.

2015-12-01

The SRAL Radar Altimeter, on board of the ESA Mission Sentinel-3 (S-3), has the capacity to operate either in the Pulse-Limited Mode (also known as LRM) or in the novel Synthetic Aperture Radar (SAR) mode. Thanks to the initial results from SAR Altimetry obtained exploiting CryoSat-2 data, lately the interest by the scientific community in this new technology has significantly increased and consequently the definition of accurate processing methodologies (along with validation strategies) has now assumed a capital importance. In this paper, we present the algorithm proposed to retrieve from S-3 STM SAR return waveforms the standard ocean geophysical parameters (ocean topography, wave height and sigma nought) and the validation results that have been so far achieved exploiting the CryoSat-2 data as well as the simulated data. The inversion method (retracking) to extract from the return waveform the geophysical information is a curve best-fitting scheme based on the bounded Levenberg-Marquardt Least-Squares Estimation Method (LEVMAR-LSE). The S-3 STM SAR Ocean retracking algorithm adopts, as return waveform’s model, the “SAMOSA” model [Ray et al, 2014], named after the R&D project SAMOSA (led by Satoc and funded by ESA), in which it has been initially developed. The SAMOSA model is a physically-based model that offers a complete description of a SAR Altimeter return waveform from ocean surface, expressed in the form of maps of reflected power in Delay-Doppler space (also known as stack) or expressed as multilooked echoes. SAMOSA is able to account for an elliptical antenna pattern, mispointing errors in roll and yaw, surface scattering pattern, non-linear ocean wave statistics and spherical Earth surface effects. In spite of its truly comprehensive character, the SAMOSA model comes with a compact analytical formulation expressed in term of Modified Bessel functions. The specifications of the retracking algorithm have been gathered in a technical document (DPM

Detection and tracking of a low energy swell system off the U.S. East Coast with the Seasat SAR

Science.gov (United States)

Beal, R. C.

1980-01-01

It is noted that on the morning of September 28, 1978, at 1520 GMT, Seasat approached the East Coast of the U.S. with the 100 km swath of its synthetic aperture radar (SAR) running approximately parallel to the coast but displayed eastward by about 20 km. This pass is analyzed and the following conclusions are drawn: (1) the SAR can successfully detect low-energy swell systems with wave heights under 1 m (actually 0.65 + or - 0.25 m); (2) the refraction of low-energy but well-organized swells deriving from changes in the local depth of the ocean is clearly detectable in both wavelength and direction; and (3) the complexity of the ocean spectrum (whether composed of more than one system or spread in direction and wave number) appears to have little bearing on the threshold detection limits.

Staphylococcus aureus Quorum Regulator SarA Targeted Compound, 2-[(Methylaminomethyl]phenol Inhibits Biofilm and Down-Regulates Virulence Genes

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P. Balamurugan

2017-07-01

Full Text Available Staphylococcus aureus is a widely acknowledged Gram-positive pathogen for forming biofilm and virulence gene expressions by quorum sensing (QS, a cell to cell communication process. The quorum regulator SarA of S. aureus up-regulates the expression of many virulence factors including biofilm formation to mediate pathogenesis and evasion of the host immune system in the late phases of growth. Thus, inhibiting the production or blocking SarA protein might influence the down-regulation of biofilm and virulence factors. In this context, here we have synthesized 2-[(Methylaminomethyl]phenol, which was specifically targeted toward the quorum regulator SarA through in silico approach in our previous study. The molecule has been evaluated in vitro to validate its antibiofilm activity against clinical S. aureus strains. In addition, antivirulence properties of the inhibitor were confirmed with the observation of a significant reduction in the expression of representative virulence genes like fnbA, hla and hld that are governed under S. aureus QS. Interestingly, the SarA targeted inhibitor showed negligible antimicrobial activity and markedly reduced the minimum inhibitory concentration of conventional antibiotics when used in combination making it a more attractive lead for further clinical tests.

How infectious is SARS virus

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. How infectious is SARS virus. Influenza: 1 patient infects ten people. SARS: 1 patient infects 2-4 people. Incubation period 10 days. Are there `silent´ cases ? Is quarantine enough ? How will it behave if and when it returns ?

Dynamics of SARS-coronavirus HR2 domain in the prefusion and transition states

Science.gov (United States)

McReynolds, Susanna; Jiang, Shaokai; Rong, Lijun; Caffrey, Michael

2009-12-01

The envelope glycoproteins S1 and S2 of severe acute respiratory syndrome coronavirus (SARS-CoV) mediate viral entry by conformational change from a prefusion state to a postfusion state that enables fusion of the viral and target membranes. In this work we present the characterization of the dynamic properties of the SARS-CoV S2-HR2 domain (residues 1141-1193 of S) in the prefusion and newly discovered transition states by NMR 15N relaxation studies. The dynamic properties of the different states, which are stabilized under different experimental conditions, extend the current model of viral membrane fusion and give insight into the design of structure-based antagonists of SARS-CoV in particular, as well as other enveloped viruses such as HIV.

Crystallization and preliminary X-ray diffraction analysis of Nsp15 from SARS coronavirus

International Nuclear Information System (INIS)

Ricagno, Stéfano; Coutard, Bruno; Grisel, Sacha; Brémond, Nicolas; Dalle, Karen; Tocque, Fabienne; Campanacci, Valérie; Lichière, Julie; Lantez, Violaine; Debarnot, Claire; Cambillau, Christian; Canard, Bruno; Egloff, Marie-Pierre

2006-01-01

Crystals of Nsp15 from the aetiological agent of SARS have been grown at room temperature. Crystals have cubic symmetry and diffract to a maximum resolution of 2.7 Å. The non-structural protein Nsp15 from the aetiological agent of SARS (severe acute respiratory syndrome) has recently been characterized as a uridine-specific endoribonuclease. This enzyme plays an essential role in viral replication and transcription since a mutation in the related H229E human coronavirus nsp15 gene can abolish viral RNA synthesis. SARS full-length Nsp15 (346 amino acids) has been cloned and expressed in Escherichia coli with an N-terminal hexahistidine tag and has been purified to homogeneity. The protein was subsequently crystallized using PEG 8000 or 10 000 as precipitants. Small cubic crystals of the apoenzyme were obtained from 100 nl nanodrops. They belong to space group P4 1 32 or P4 3 32, with unit-cell parameters a = b = c = 166.8 Å. Diffraction data were collected to a maximum resolution of 2.7 Å

Crystallization and preliminary X-ray diffraction analysis of Nsp15 from SARS coronavirus

Energy Technology Data Exchange (ETDEWEB)

Ricagno, Stéfano; Coutard, Bruno; Grisel, Sacha; Brémond, Nicolas; Dalle, Karen; Tocque, Fabienne; Campanacci, Valérie; Lichière, Julie; Lantez, Violaine; Debarnot, Claire; Cambillau, Christian; Canard, Bruno; Egloff, Marie-Pierre, E-mail: marie-pierre.egloff@afmb.univ-mrs.fr [Centre National de la Recherche Scientifique and Universités d’Aix-Marseille I et II, UMR 6098, Architecture et Fonction des Macromolécules Biologiques, Ecole Supérieure d’Ingénieurs de Luminy-Case 925, 163 Avenue de Luminy, 13288 Marseille CEDEX 9 (France)

2006-04-01

Crystals of Nsp15 from the aetiological agent of SARS have been grown at room temperature. Crystals have cubic symmetry and diffract to a maximum resolution of 2.7 Å. The non-structural protein Nsp15 from the aetiological agent of SARS (severe acute respiratory syndrome) has recently been characterized as a uridine-specific endoribonuclease. This enzyme plays an essential role in viral replication and transcription since a mutation in the related H229E human coronavirus nsp15 gene can abolish viral RNA synthesis. SARS full-length Nsp15 (346 amino acids) has been cloned and expressed in Escherichia coli with an N-terminal hexahistidine tag and has been purified to homogeneity. The protein was subsequently crystallized using PEG 8000 or 10 000 as precipitants. Small cubic crystals of the apoenzyme were obtained from 100 nl nanodrops. They belong to space group P4{sub 1}32 or P4{sub 3}32, with unit-cell parameters a = b = c = 166.8 Å. Diffraction data were collected to a maximum resolution of 2.7 Å.

Mechanisms of SAR Imaging of Shallow Water Topography of the Subei Bank

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Shuangshang Zhang

2017-11-01

Full Text Available In this study, the C-band radar backscatter features of the shallow water topography of Subei Bank in the Southern Yellow Sea are statistically investigated using 25 ENVISAT (Environmental Satellite ASAR (advanced synthetic aperture radar and ERS-2 (European Remote-Sensing Satellite-2 SAR images acquired between 2006 and 2010. Different bathymetric features are found on SAR imagery under different sea states. Under low to moderate wind speeds (3.1~6.3 m/s, the wide bright patterns with an average width of 6 km are shown and correspond to sea surface imprints of tidal channels formed by two adjacent sand ridges, while the sand ridges appear as narrower (only 1 km wide, fingerlike, quasi-linear features on SAR imagery in high winds (5.4~13.9 m/s. Two possible SAR imaging mechanisms of coastal bathymetry are proposed in the case where the flow is parallel to the major axes of tidal channels or sand ridges. When the surface Ekman current is opposite to the mean tidal flow, two vortexes will converge at the central line of the tidal channel in the upper layer and form a convergent zone over the sea surface. Thus, the tidal channels are shown as wide and bright stripes on SAR imagery. For the SAR imaging of sand ridges, all the SAR images were acquired at low tidal levels. In this case, the ocean surface waves are possibly broken up under strong winds when propagating from deep water to the shallower water, which leads to an increase of surface roughness over the sand ridges.

Orthology Analysis and In Vivo Complementation Studies to Elucidate the Role of DIR1 during Systemic Acquired Resistance in Arabidopsis thaliana and Cucumis sativus

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Marisa Isaacs

2016-05-01

Full Text Available AtDIR1 (Defective in Induced Resistance1 is an acidic lipid transfer protein essential for systemic acquired resistance (SAR in Arabidopsis thaliana. Upon SAR induction, DIR1 moves from locally infected to distant uninfected leaves to activate defense priming; however, a molecular function for DIR1 has not been elucidated. Bioinformatic analysis and in silico homology modeling identified putative AtDIR1 orthologs in crop species, revealing conserved protein motifs within and outside of DIR1’s central hydrophobic cavity. In vitro assays to compare the capacity of recombinant AtDIR1 and targeted AtDIR1-variant proteins to bind the lipophilic probe TNS (6,P-toluidinylnaphthalene-2-sulfonate provided evidence that conserved leucine 43 and aspartic acid 39 contribute to the size of the DIR1 hydrophobic cavity and possibly hydrophobic ligand binding. An Arabidopsis–cucumber SAR model was developed to investigate the conservation of DIR1 function in cucumber (Cucumis sativus, and we demonstrated that phloem exudates from SAR-induced cucumber rescued the SAR defect in the Arabidopsis dir1-1 mutant. Additionally, an AtDIR1 antibody detected a protein of the same size as AtDIR1 in SAR-induced cucumber phloem exudates, providing evidence that DIR1 function during SAR is conserved in Arabidopsis and cucumber. In vitro TNS displacement assays demonstrated that recombinant AtDIR1 did not bind the SAR signals azelaic acid (AzA, glycerol-3-phosphate or pipecolic acid. However, recombinant CsDIR1 and CsDIR2 interacted weakly with AzA and pipecolic acid. Bioinformatic and functional analyses using the Arabidopsis–cucumber SAR model provide evidence that DIR1 orthologs exist in tobacco, tomato, cucumber, and soybean, and that DIR1-mediated SAR signaling is conserved in Arabidopsis and cucumber.

Enhancement of the infectivity of SARS-CoV in BALB/c mice by IMP dehydrogenase inhibitors, including ribavirin.

Science.gov (United States)

Barnard, Dale L; Day, Craig W; Bailey, Kevin; Heiner, Matthew; Montgomery, Robert; Lauridsen, Larry; Winslow, Scott; Hoopes, Justin; Li, Joseph K-K; Lee, Jongdae; Carson, Dennis A; Cottam, Howard B; Sidwell, Robert W

2006-08-01

Because of the conflicting data concerning the SARS-CoV inhibitory efficacy of ribavirin, an inosine monophosphate (IMP) dehydrogenase inhibitor, studies were done to evaluate the efficacy of ribavirin and other IMP dehydrogenase inhibitors (5-ethynyl-1-beta-D-ribofuranosylimidazole-4-carboxamide (EICAR), mizoribine, and mycophenolic acid) in preventing viral replication in the lungs of BALB/c mice, a replication model for severe acute respiratory syndrome (SARS) infections (Subbarao, K., McAuliffe, J., Vogel, L., Fahle, G., Fischer, S., Tatti, K., Packard, M., Shieh, W.J., Zaki, S., Murphy, B., 2004. Prior infection and passive transfer of neutralizing antibody prevent replication of severe acute respiratory syndrome coronavirus (SARS-CoV) in the respiratory tract of mice. J. Virol. 78, 3572-3577). Ribavirin given at 75 mg/kg 4 h prior to virus exposure and then given twice daily for 3 days beginning at day 0 was found to increase virus lung titers and extend the length of time that virus could be detected in the lungs of mice. Other IMP dehydrogenase inhibitors administered near maximum tolerated doses using the same dosing regimen as for ribavirin were found to slightly enhance virus replication in the lungs. In addition, ribavirin treatment seemed also to promote the production of pro-inflammatory cytokines 4 days after cessation of treatment, although after 3 days of treatment ribavirin inhibited pro-inflammatory cytokine production in infected mice, significantly reducing the levels of the cytokines IL-1alpha, interleukin-5 (IL-5), monocyte chemotactic protein-1 (MCP-1), and granulocyte-macrophage colony stimulating factor (GM-CSF). These findings suggest that ribavirin may actually contribute to the pathogenesis of SARS-CoV by prolonging and/or enhancing viral replication in the lungs. By not inhibiting viral replication in the lungs of infected mice, ribavirin treatment may have provided a continual source of stimulation for the inflammatory response

SABP2, a methyl salicylate esterase is required for the systemic acquired resistance induced by acibenzolar-S-methyl in plants.

Science.gov (United States)

Tripathi, Diwaker; Jiang, Yu-Lin; Kumar, Dhirendra

2010-08-04

Tobacco SABP2, a 29kDa protein catalyzes the conversion of methyl salicylic acid (MeSA) into salicylic acid (SA) to induce SAR. Pretreatment of plants with acibenzolar-S-methyl (ASM), a functional analog of salicylic acid induces systemic acquired resistance (SAR). Data presented in this paper suggest that SABP2 catalyzes the conversion of ASM into acibenzolar to induce SAR. Transgenic SABP2-silenced tobacco plants when treated with ASM, fail to express PR-1 proteins and do not induce robust SAR expression. When treated with acibenzolar, full SAR is induced in SABP2-silenced plants. These results show that functional SABP2 is required for ASM-mediated induction of resistance. Copyright (c) 2010 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

Sentinel-1 data massive processing for large scale DInSAR analyses within Cloud Computing environments through the P-SBAS approach

Science.gov (United States)

Lanari, Riccardo; Bonano, Manuela; Buonanno, Sabatino; Casu, Francesco; De Luca, Claudio; Fusco, Adele; Manunta, Michele; Manzo, Mariarosaria; Pepe, Antonio; Zinno, Ivana

2017-04-01

The SENTINEL-1 (S1) mission is designed to provide operational capability for continuous mapping of the Earth thanks to its two polar-orbiting satellites (SENTINEL-1A and B) performing C-band synthetic aperture radar (SAR) imaging. It is, indeed, characterized by enhanced revisit frequency, coverage and reliability for operational services and applications requiring long SAR data time series. Moreover, SENTINEL-1 is specifically oriented to interferometry applications with stringent requirements based on attitude and orbit accuracy and it is intrinsically characterized by small spatial and temporal baselines. Consequently, SENTINEL-1 data are particularly suitable to be exploited through advanced interferometric techniques such as the well-known DInSAR algorithm referred to as Small BAseline Subset (SBAS), which allows the generation of deformation time series and displacement velocity maps. In this work we present an advanced interferometric processing chain, based on the Parallel SBAS (P-SBAS) approach, for the massive processing of S1 Interferometric Wide Swath (IWS) data aimed at generating deformation time series in efficient, automatic and systematic way. Such a DInSAR chain is designed to exploit distributed computing infrastructures, and more specifically Cloud Computing environments, to properly deal with the storage and the processing of huge S1 datasets. In particular, since S1 IWS data are acquired with the innovative Terrain Observation with Progressive Scans (TOPS) mode, we could benefit from the structure of S1 data, which are composed by bursts that can be considered as separate acquisitions. Indeed, the processing is intrinsically parallelizable with respect to such independent input data and therefore we basically exploited this coarse granularity parallelization strategy in the majority of the steps of the SBAS processing chain. Moreover, we also implemented more sophisticated parallelization approaches, exploiting both multi-node and multi

Mechanisms of the electron density depletion in the SAR arc region

Directory of Open Access Journals (Sweden)

A. V. Pavlov

Full Text Available This study compares the measurements of electron density and temperature and the integral airglow intensity at 630 nm in the SAR arc region and slightly south of this (obtained by the Isis 2 spacecraft during the 18 December 1971 magnetic storm, with the model results obtained using the time dependent one-dimensional mathematical model of the Earth's ionosphere and plasmasphere. The explicit expression in the third Enskog approximation for the electron thermal conductivity coefficient in the multicomponent mixture of ionized gases and a simplified calculation method for this coefficient presents an opportunity to calculate more exactly the electron temperature and density and 630 nm emission within SAR arc region are used in the model. Collisions between N₂ and hot thermal electrons in the SAR arc region produce vibrationally excited nitrogen molecules. It appears that the loss rate of O⁺(⁴S due to reactions with the vibrationally excited nitrogen is enough to explain electron density depression by a factor of two at F-region heights and the topside ionosphere density variations within the SAR arc if the erosion of plasma within geomagnetic field tubes, during the main phase of the geomagnetic storm and subsequent filling of geomagnetic tubes during the recovery phase, are considered. To explain the disagreement by a factor 1.5 between the observed and modeled SAR arc electron densities an additional plasma drift velocity ~–30 m s^–1 in the ion continuity equations is needed during the recovery phase. This additional plasma drift velocity is likely caused by the transition from convecting to corotating flux tubes on the equatorward wall of the trough. The electron densities and temperatures and 630 nm integral intensity at the SAR arc and slightly south of this region as measured for the 18 December 1971 magnetic storm were correctly described by the model without perpendicular electric fields

Isolation and characterization of a bat SARS-like coronavirus that uses the ACE2 receptor.

Science.gov (United States)

Ge, Xing-Yi; Li, Jia-Lu; Yang, Xing-Lou; Chmura, Aleksei A; Zhu, Guangjian; Epstein, Jonathan H; Mazet, Jonna K; Hu, Ben; Zhang, Wei; Peng, Cheng; Zhang, Yu-Ji; Luo, Chu-Ming; Tan, Bing; Wang, Ning; Zhu, Yan; Crameri, Gary; Zhang, Shu-Yi; Wang, Lin-Fa; Daszak, Peter; Shi, Zheng-Li

2013-11-28

The 2002-3 pandemic caused by severe acute respiratory syndrome coronavirus (SARS-CoV) was one of the most significant public health events in recent history. An ongoing outbreak of Middle East respiratory syndrome coronavirus suggests that this group of viruses remains a key threat and that their distribution is wider than previously recognized. Although bats have been suggested to be the natural reservoirs of both viruses, attempts to isolate the progenitor virus of SARS-CoV from bats have been unsuccessful. Diverse SARS-like coronaviruses (SL-CoVs) have now been reported from bats in China, Europe and Africa, but none is considered a direct progenitor of SARS-CoV because of their phylogenetic disparity from this virus and the inability of their spike proteins to use the SARS-CoV cellular receptor molecule, the human angiotensin converting enzyme II (ACE2). Here we report whole-genome sequences of two novel bat coronaviruses from Chinese horseshoe bats (family: Rhinolophidae) in Yunnan, China: RsSHC014 and Rs3367. These viruses are far more closely related to SARS-CoV than any previously identified bat coronaviruses, particularly in the receptor binding domain of the spike protein. Most importantly, we report the first recorded isolation of a live SL-CoV (bat SL-CoV-WIV1) from bat faecal samples in Vero E6 cells, which has typical coronavirus morphology, 99.9% sequence identity to Rs3367 and uses ACE2 from humans, civets and Chinese horseshoe bats for cell entry. Preliminary in vitro testing indicates that WIV1 also has a broad species tropism. Our results provide the strongest evidence to date that Chinese horseshoe bats are natural reservoirs of SARS-CoV, and that intermediate hosts may not be necessary for direct human infection by some bat SL-CoVs. They also highlight the importance of pathogen-discovery programs targeting high-risk wildlife groups in emerging disease hotspots as a strategy for pandemic preparedness.

Chandrayaan-2 dual-frequency SAR: Further investigation into lunar water and regolith

Science.gov (United States)

Putrevu, Deepak; Das, Anup; Vachhani, J. G.; Trivedi, Sanjay; Misra, Tapan

2016-01-01

The Space Applications Centre (SAC), one of the major centers of the Indian Space Research Organization (ISRO), is developing a high resolution, dual-frequency Synthetic Aperture Radar as a science payload on Chandrayaan-2, ISRO's second moon mission. With this instrument, ISRO aims to further the ongoing studies of the data from S-band MiniSAR onboard Chandrayaan-1 (India) and the MiniRF of Lunar Reconnaissance Orbiter (USA). The SAR instrument has been configured to operate with both L- and S-bands, sharing a common antenna. The S-band SAR will provide continuity to the MiniSAR data, whereas L-band is expected to provide deeper penetration of the lunar regolith. The system will have a selectable slant-range resolution from 2 m to 75 m, along with standalone (L or S) and simultaneous (L and S) modes of imaging. Various features of the instrument like hybrid and full-polarimetry, a wide range of imaging incidence angles (∼10° to ∼35°) and the high spatial resolution will greatly enhance our understanding of surface properties especially in the polar regions of the Moon. The system will also help in resolving some of the ambiguities in interpreting high values of Circular Polarization Ratio (CPR) observed in MiniSAR data. The added information from full-polarimetric data will allow greater confidence in the results derived particularly in detecting the presence (and estimating the quantity) of water-ice in the polar craters. Being a planetary mission, the L&S-band SAR for Chandrayaan-2 faced stringent limits on mass, power and data rate (15 kg, 100 W and 160 Mbps respectively), irrespective of any of the planned modes of operation. This necessitated large-scale miniaturization, extensive use of on-board processing, and devices and techniques to conserve power. This paper discusses the scientific objectives which drive the requirement of a lunar SAR mission and presents the configuration of the instrument, along with a description of a number of features of the

Evaluation of RISAT-1 SAR data for tropical forestry applications

Science.gov (United States)

Padalia, Hitendra; Yadav, Sadhana

2017-01-01

India launched C band (5.35 GHz) RISAT-1 (Radar Imaging Satellite-1) on 26th April, 2012, equipped with the capability to image the Earth at multiple-resolutions and -polarizations. In this study the potential of Fine Resolution Strip (FRS) modes of RISAT-1 was evaluated for characterization and classification forests and estimation of biomass of early growth stages. The study was carried out at the two sites located in the foothills of western Himalaya, India. The pre-processing and classification of FRS-1 SAR data was performed using PolSAR Pro ver. 5.0 software. The scattering mechanisms derived from m-chi decomposition of FRS-1 RH/RV data were found physically meaningful for the characterization of various surface features types. The forest and land use type classification of the study area was developed applying Support Vector Machine (SVM) algorithm on FRS-1 derived appropriate polarimetric features. The biomass of early growth stages of Eucalyptus (up to 60 ton/ha) was estimated developing a multi-linear regression model using C band σ0 HV and σ0 HH backscatter information. The study outcomes has promise for wider application of RISAT-1 data for forest cover monitoring, especially for the tropical regions.

Genetic variation of the human α-2-Heremans-Schmid glycoprotein (AHSG gene associated with the risk of SARS-CoV infection.

Directory of Open Access Journals (Sweden)

Xiaohui Zhu

Full Text Available Genetic background may play an important role in the process of SARS-CoV infection and SARS development. We found several proteins that could interact with the nucleocapsid protein of the SARS coronavirus (SARS-CoV. α-2-Heremans-Schmid Glycoprotein (AHSG, which is required for macrophage deactivation by endogenous cations, is associated with inflammatory regulation. Cytochrome P450 Family 3A (CYP4F3A is an ω-oxidase that inactivates Leukotriene B4 (LTB4 in human neutrophils and the liver. We investigated the association between the polymorphisms of these two inflammation-associated genes and SARS development. The linkage disequilibrium (LD maps of these two genes were built with Haploview using data on CHB+JPT (version 2 from the HapMap. A total of ten tag SNPs were selected and genotyped. In the Guangzhou cohort study, after adjusting for age and sex, two AHSG SNPs and one CYP4F3 SNP were found to be associated with SARS susceptibility: rs2248690 (adjusted odds ratio [AOR] 2.42; 95% confidence interval [CI] 1.30-4.51; rs4917 (AOR 1.84; 95% CI 1.02-3.34; and rs3794987 (AOR 2.01; 95% CI 1.10-3.68. To further validate the association, the ten tag SNPs were genotyped in the Beijing cohort. After adjusting for age and sex, only rs2248690 (AOR, 1.63; 95% CI, 1.30-2.04 was found to be associated with SARS susceptibility. The combined analysis of the two studies confirmed tag SNP rs2248690 in AHSG as a susceptibility variant (AOR 1.70; 95% CI 1.37-2.09. The statistical analysis of the rs2248690 genotype data among the patients and healthy controls in the HCW cohort, who were all similarly exposed to the SARS virus, also supported the findings. Further, the SNP rs2248690 affected the transcriptional activity of the AHSG promoter and thus regulated the AHSG serum level. Therefore, our study has demonstrated that the AA genotype of rs2268690, which leads to a higher AHSG serum concentration, was significantly associated with protection against SARS

Mapping Regional Inundation with Spaceborne L-Band SAR

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Bruce Chapman

2015-04-01

Full Text Available Shortly after the launch of ALOS PALSAR L-band SAR by the Japan Space Exploration Agency (JAXA, a program to develop an Earth Science Data Record (ESDR for inundated wetlands was funded by NASA. Using established methodologies, extensive multi-temporal L-band ALOS ScanSAR data acquired bi-monthly by the PALSAR instrument onboard ALOS were used to classify the inundation state for South America for delivery as a component of this Inundated Wetlands ESDR (IW-ESDR and in collaboration with JAXA’s ALOS Kyoto and Carbon Initiative science programme. We describe these methodologies and the final classification of the inundation state, then compared this with results derived from dual-season data acquired by the JERS-1 L-band SAR mission in 1995 and 1996, as well as with estimates of surface water extent measured globally every 10 days by coarser resolution sensors. Good correspondence was found when comparing open water extent classified from multi-temporal ALOS ScanSAR data with surface water fraction identified from coarse resolution sensors, except in those regions where there may be differences in sensitivity to widespread and shallow seasonal flooding event, or in areas that could be excluded through use of a continental-scale inundatable mask. It was found that the ALOS ScanSAR classification of inundated vegetation was relatively insensitive to inundated herbaceous vegetation. Inundation dynamics were examined using the multi-temporal ALOS ScanSAR acquisitions over the Pacaya-Samiria and surrounding areas in the Peruvian Amazon.

Mechanisms of the electron density depletion in the SAR arc region

Directory of Open Access Journals (Sweden)

A. V. Pavlov

1996-02-01

Full Text Available This study compares the measurements of electron density and temperature and the integral airglow intensity at 630 nm in the SAR arc region and slightly south of this (obtained by the Isis 2 spacecraft during the 18 December 1971 magnetic storm, with the model results obtained using the time dependent one-dimensional mathematical model of the Earth\\'s ionosphere and plasmasphere. The explicit expression in the third Enskog approximation for the electron thermal conductivity coefficient in the multicomponent mixture of ionized gases and a simplified calculation method for this coefficient presents an opportunity to calculate more exactly the electron temperature and density and 630 nm emission within SAR arc region are used in the model. Collisions between N2 and hot thermal electrons in the SAR arc region produce vibrationally excited nitrogen molecules. It appears that the loss rate of O+(4S due to reactions with the vibrationally excited nitrogen is enough to explain electron density depression by a factor of two at F-region heights and the topside ionosphere density variations within the SAR arc if the erosion of plasma within geomagnetic field tubes, during the main phase of the geomagnetic storm and subsequent filling of geomagnetic tubes during the recovery phase, are considered. To explain the disagreement by a factor 1.5 between the observed and modeled SAR arc electron densities an additional plasma drift velocity ~–30 m s–1 in the ion continuity equations is needed during the recovery phase. This additional plasma drift velocity is likely caused by the transition from convecting to corotating flux tubes on the equatorward wall of the trough. The electron densities and temperatures and 630 nm integral intensity at the SAR arc and slightly south of this region as measured for the 18 December 1971 magnetic storm were correctly described by the model without perpendicular electric fields. Within this model framework the effect of the

Modelling of potentially promising SARS protease inhibitors

International Nuclear Information System (INIS)

Plewczynski, Dariusz; Hoffmann, Marcin; Grotthuss, Marcin von; Knizewski, Lukasz; Rychewski, Leszek; Eitner, Krystian; Ginalski, Krzysztof

2007-01-01

In many cases, at the beginning of a high throughput screening experiment some information about active molecules is already available. Active compounds (such as substrate analogues, natural products and inhibitors of related proteins) are often identified in low throughput validation studies on a biochemical target. Sometimes the additional structural information is also available from crystallographic studies on protein and ligand complexes. In addition, the structural or sequence similarity of various protein targets yields a novel possibility for drug discovery. Co-crystallized compounds from homologous proteins can be used to design leads for a new target without co-crystallized ligands. In this paper we evaluate how far such an approach can be used in a real drug campaign, with severe acute respiratory syndrome (SARS) coronavirus providing an example. Our method is able to construct small molecules as plausible inhibitors solely on the basis of the set of ligands from crystallized complexes of a protein target, and other proteins from its structurally homologous family. The accuracy and sensitivity of the method are estimated here by the subsequent use of an electronic high throughput screening flexible docking algorithm. The best performing ligands are then used for a very restrictive similarity search for potential inhibitors of the SARS protease within the million compounds from the Ligand.Info small molecule meta-database. The selected molecules can be passed on for further experimental validation

Modelling of potentially promising SARS protease inhibitors

Energy Technology Data Exchange (ETDEWEB)

Plewczynski, Dariusz [Interdisciplinary Centre for Mathematical and Computational Modelling, ICM, Warsaw University, Pawinskiego 5a Street, 02-106 Warsaw (Poland); Hoffmann, Marcin [BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan (Poland); Grotthuss, Marcin von [BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan (Poland); Knizewski, Lukasz [Interdisciplinary Centre for Mathematical and Computational Modelling, ICM, Warsaw University, Pawinskiego 5a Street, 02-106 Warsaw (Poland); Rychewski, Leszek [BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan (Poland); Eitner, Krystian [BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan (Poland); Ginalski, Krzysztof [Interdisciplinary Centre for Mathematical and Computational Modelling, ICM, Warsaw University, Pawinskiego 5a Street, 02-106 Warsaw (Poland)

2007-07-18

In many cases, at the beginning of a high throughput screening experiment some information about active molecules is already available. Active compounds (such as substrate analogues, natural products and inhibitors of related proteins) are often identified in low throughput validation studies on a biochemical target. Sometimes the additional structural information is also available from crystallographic studies on protein and ligand complexes. In addition, the structural or sequence similarity of various protein targets yields a novel possibility for drug discovery. Co-crystallized compounds from homologous proteins can be used to design leads for a new target without co-crystallized ligands. In this paper we evaluate how far such an approach can be used in a real drug campaign, with severe acute respiratory syndrome (SARS) coronavirus providing an example. Our method is able to construct small molecules as plausible inhibitors solely on the basis of the set of ligands from crystallized complexes of a protein target, and other proteins from its structurally homologous family. The accuracy and sensitivity of the method are estimated here by the subsequent use of an electronic high throughput screening flexible docking algorithm. The best performing ligands are then used for a very restrictive similarity search for potential inhibitors of the SARS protease within the million compounds from the Ligand.Info small molecule meta-database. The selected molecules can be passed on for further experimental validation.

Late-stage optimization of a tercyclic class of S1P3-sparing, S1P1 receptor agonists.

Science.gov (United States)

Horan, Joshua C; Kuzmich, Daniel; Liu, Pingrong; DiSalvo, Darren; Lord, John; Mao, Can; Hopkins, Tamara D; Yu, Hui; Harcken, Christian; Betageri, Raj; Hill-Drzewi, Melissa; Patenaude, Lori; Patel, Monica; Fletcher, Kimberly; Terenzzio, Donna; Linehan, Brian; Xia, Heather; Patel, Mita; Studwell, Debbie; Miller, Craig; Hickey, Eugene; Levin, Jeremy I; Smith, Dustin; Kemper, Raymond A; Modis, Louise K; Bannen, Lynne C; Chan, Diva S; Mac, Morrison B; Ng, Stephanie; Wang, Yong; Xu, Wei; Lemieux, René M

2016-01-15

Poor solubility and cationic amphiphilic drug-likeness were liabilities identified for a lead series of S1P3-sparing, S1P1 agonists originally developed from a high-throughput screening campaign. This work describes the subsequent optimization of these leads by balancing potency, selectivity, solubility and overall molecular charge. Focused SAR studies revealed favorable structural modifications that, when combined, produced compounds with overall balanced profiles. The low brain exposure observed in rat suggests that these compounds would be best suited for the potential treatment of peripheral autoimmune disorders. Copyright © 2015 Elsevier Ltd. All rights reserved.

Pyrimidine and nucleoside gamma-esters of L-Glu-Sar

DEFF Research Database (Denmark)

Eriksson, André H; Elm, Peter L; Begtrup, Mikael

2005-01-01

-tetrahydrofuran-3-yl ester)-Sar (I), l-Glu(thymine-1-yl-methyl ester)-Sar (II) and l-Glu(acyclothymidine)-Sar (III) were synthesised and in vitro stability was studied in various aqueous and biological media. Affinity to and translocation via hPEPT1 was investigated in mature Caco-2 cell monolayers, grown......The aim of the present study was to improve the synthetic pathway of bioreversible dipeptide derivatives as well as evaluate the potential of using l-Glu-Sar as a pro-moiety for delivering three newly synthesised nucleoside and pyrimidine l-Glu-Sar derivatives. l-Glu(trans-2-thymine-1-yl...

TerraSAR-X InSAR multipass analysis on Venice, Italy)

Science.gov (United States)

Nitti, D. O.; Nutricato, R.; Bovenga, F.; Refice, A.; Chiaradia, M. T.; Guerriero, L.

2009-09-01

The TerraSAR-X (copyright) mission, launched in 2007, carries a new X-band Synthetic Aperture Radar (SAR) sensor optimally suited for SAR interferometry (InSAR), thus allowing very promising application of InSAR techniques for the risk assessment on areas with hydrogeological instability and especially for multi-temporal analysis, such as Persistent Scatterer Interferometry (PSI) techniques, originally developed at Politecnico di Milano. The SPINUA (Stable Point INterferometry over Unurbanised Areas) technique is a PSI processing methodology which has originally been developed with the aim of detection and monitoring of coherent PS targets in non or scarcely-urbanized areas. The main goal of the present work is to describe successful applications of the SPINUA PSI technique in processing X-band data. Venice has been selected as test site since it is in favorable settings for PSI investigations (urban area containing many potential coherent targets such as buildings) and in view of the availability of a long temporal series of TerraSAR-X stripmap acquisitions (27 scenes in all). The Venice Lagoon is affected by land sinking phenomena, whose origins are both natural and man-induced. The subsidence of Venice has been intensively studied for decades by determining land displacements through traditional monitoring techniques (leveling and GPS) and, recently, by processing stacks of ERS/ENVISAT SAR data. The present work is focused on an independent assessment of application of PSI techniques to TerraSAR-X stripmap data for monitoring the stability of the Venice area. Thanks to its orbital repeat cycle of only 11 days, less than a third of ERS/ENVISAT C-band missions, the maximum displacement rate that can be unambiguously detected along the Line-of-Sight (LOS) with TerraSAR-X SAR data through PSI techniques is expected to be about twice the corresponding value of ESA C-band missions, being directly proportional to the sensor wavelength and inversely proportional to the

The 'tubulin-like' S1 protein of Spirochaeta is a member of the hsp65 stress protein family

Science.gov (United States)

Munson, D.; Obar, R.; Tzertzinis, G.; Margulis, L.

1993-01-01

A 65-kDa protein (called S1) from Spirochaeta bajacaliforniensis was identified as 'tubulin-like' because it cross-reacted with at least four different antisera raised against tubulin and was isolated, with a co-polymerizing 45-kDa protein, by warm-cold cycling procedures used to purify tubulin from mammalian brain. Furthermore, at least three genera of non-cultivable symbiotic spirochetes (Pillotina, Diplocalyx, and Hollandina) that contain conspicuous 24-nm cytoplasmic tubules displayed a strong fluorescence in situ when treated with polyclonal antisera raised against tubulin. Here we summarize results that lead to the conclusion that this 65-kDa protein has no homology to tubulin. S1 is an hsp65 stress protein homologue. Hsp65 is a highly immunogenic family of hsp60 proteins which includes the 65-kDa antigens of Mycobacterium tuberculosis (an active component of Freund's complete adjuvant), Borrelia, Treponema, Chlamydia, Legionella, and Salmonella. The hsp60s, also known as chaperonins, include E. coli GroEL, mitochondrial and chloroplast chaperonins, the pea aphid 'symbionin' and many other proteins involved in protein folding and the stress response.

MULTI-TEMPORAL SAR INTERFEROMETRY FOR LANDSLIDE MONITORING

Directory of Open Access Journals (Sweden)

R. Dwivedi

2016-06-01

Full Text Available In the past few years, SAR Interferometry specially InSAR and D-InSAR were extensively used for deformation monitoring related applications. Due to temporal and spatial decorrelation in dense vegetated areas, effectiveness of InSAR and D-InSAR observations were always under scrutiny. Multi-temporal InSAR methods are developed in recent times to retrieve the deformation signal from pixels with different scattering characteristics. Presently, two classes of multi-temporal InSAR algorithms are available- Persistent Scatterer (PS and Small Baseline (SB methods. This paper discusses the Stanford Method for Persistent Scatterer (StaMPS based PS-InSAR and the Small Baselines Subset (SBAS techniques to estimate the surface deformation in Tehri dam reservoir region in Uttarkhand, India. Both PS-InSAR and SBAS approaches used sixteen ENVISAT ASAR C-Band images for generating single master and multiple master interferograms stack respectively and their StaMPS processing resulted in time series 1D-Line of Sight (LOS mean velocity maps which are indicative of deformation in terms of movement towards and away from the satellites. From 1D LOS velocity maps, localization of landslide is evident along the reservoir rim area which was also investigated in the previous studies. Both PS-InSAR and SBAS effectively extract measurement pixels in the study region, and the general results provided by both approaches show a similar deformation pattern along the Tehri reservoir region. Further, we conclude that StaMPS based PS-InSAR method performs better in terms of extracting more number of measurement pixels and in the estimation of mean Line of Sight (LOS velocity as compared to SBAS method. It is also proposed to take up a few major landslides area in Uttarakhand for slope stability assessment.

Trichohyalin-like 1 protein, a member of fused S100 proteins, is expressed in normal and pathologic human skin

Energy Technology Data Exchange (ETDEWEB)

Yamakoshi, Takako [Department of Dermatology, Graduate School of Medicine and Pharmaceutical Sciences, University of Toyama, Sugitani, Toyama 930-0194 (Japan); Makino, Teruhiko, E-mail: tmakino@med.u-toyama.ac.jp [Department of Dermatology, Graduate School of Medicine and Pharmaceutical Sciences, University of Toyama, Sugitani, Toyama 930-0194 (Japan); Ur Rehman, Mati; Yoshihisa, Yoko [Department of Dermatology, Graduate School of Medicine and Pharmaceutical Sciences, University of Toyama, Sugitani, Toyama 930-0194 (Japan); Sugimori, Michiya [Department of Integrative Neuroscience, Graduate School of Medicine and Pharmaceutical Sciences, University of Toyama, Sugitani, Toyama 930-0194 (Japan); Shimizu, Tadamichi, E-mail: shimizut@med.u-toyama.ac.jp [Department of Dermatology, Graduate School of Medicine and Pharmaceutical Sciences, University of Toyama, Sugitani, Toyama 930-0194 (Japan)

2013-03-01

Highlights: ► Trichohyalin-like 1 protein is a member of the fused-type S100 protein gene family. ► Specific antibodies against the C-terminus of the TCHHL1 protein were generated. ► TCHHL1 proteins were expressed in the basal layer of the normal epidermis. ► TCHHL1 proteins were strongly expressed in tumor nests of BCC and SCC. ► The expression of TCHHL1 proteins increased in epidermis of psoriasis vulgaris. - Abstract: Trichohyalin-like 1 (TCHHL1) protein is a novel member of the fused-type S100 protein gene family. The deduced amino acid sequence of TCHHL1 contains an EF-hand domain in the N-terminus, one trans-membrane domain and a nuclear localization signal. We generated specific antibodies against the C-terminus of the TCHHL1 protein and examined the expression of TCHHL1 proteins in normal and pathological human skin. An immunohistochemical study showed that TCHHL1 proteins were expressed in the basal layer of the normal epidermis. In addition, signals of TCHHL1 proteins were observed around the nuclei of cultured growing keratinocytes. Accordingly, TCHHL1 mRNA has been detected in normal skin and cultured growing keratinocytes. Furthermore, TCHHL1 proteins were strongly expressed in the peripheral areas of tumor nests in basal cell carcinomas and squamous cell carcinomas. A dramatic increase in the number of Ki67 positive cells was observed in TCHHL1-expressing areas. The expression of TCHHL1 proteins also increased in non-cancerous hyperproliferative epidermal tissues such as those of psoriasis vulgaris and lichen planus. These findings highlight the possibility that TCHHL1 proteins are expressed in growing keratinocytes of the epidermis and might be associated with the proliferation of keratinocytes.

Trichohyalin-like 1 protein, a member of fused S100 proteins, is expressed in normal and pathologic human skin

International Nuclear Information System (INIS)

Yamakoshi, Takako; Makino, Teruhiko; Ur Rehman, Mati; Yoshihisa, Yoko; Sugimori, Michiya; Shimizu, Tadamichi

2013-01-01

Highlights: ► Trichohyalin-like 1 protein is a member of the fused-type S100 protein gene family. ► Specific antibodies against the C-terminus of the TCHHL1 protein were generated. ► TCHHL1 proteins were expressed in the basal layer of the normal epidermis. ► TCHHL1 proteins were strongly expressed in tumor nests of BCC and SCC. ► The expression of TCHHL1 proteins increased in epidermis of psoriasis vulgaris. - Abstract: Trichohyalin-like 1 (TCHHL1) protein is a novel member of the fused-type S100 protein gene family. The deduced amino acid sequence of TCHHL1 contains an EF-hand domain in the N-terminus, one trans-membrane domain and a nuclear localization signal. We generated specific antibodies against the C-terminus of the TCHHL1 protein and examined the expression of TCHHL1 proteins in normal and pathological human skin. An immunohistochemical study showed that TCHHL1 proteins were expressed in the basal layer of the normal epidermis. In addition, signals of TCHHL1 proteins were observed around the nuclei of cultured growing keratinocytes. Accordingly, TCHHL1 mRNA has been detected in normal skin and cultured growing keratinocytes. Furthermore, TCHHL1 proteins were strongly expressed in the peripheral areas of tumor nests in basal cell carcinomas and squamous cell carcinomas. A dramatic increase in the number of Ki67 positive cells was observed in TCHHL1-expressing areas. The expression of TCHHL1 proteins also increased in non-cancerous hyperproliferative epidermal tissues such as those of psoriasis vulgaris and lichen planus. These findings highlight the possibility that TCHHL1 proteins are expressed in growing keratinocytes of the epidermis and might be associated with the proliferation of keratinocytes

Crustal Deformation along San Andreas Fault System revealed by GPS and Sentinel-1 InSAR

Science.gov (United States)

Xu, X.; Sandwell, D. T.

2017-12-01

We present a crustal deformation velocity map along the San Andreas Fault System by combining measurements from Sentinel-1 Interferometric Synthetic Aperture Radar (InSAR) and Global Positioning System (GPS) velocity models (CGM V1). We assembled 5 tracks of descending Sentinel-1 InSAR data spanning 2014.11-2017.02, and produced 545 interferograms, each of which covers roughly 250km x 420km area ( 60 bursts). These interferograms are unwrapped using SNAPHU [Chen & Zebker, 2002], with the 2Npi unwrapping ambiguity corrected with a sparse recovery method. We used coherence-based small baseline subset (SBAS) method [Tong & Schmidt, 2016] together with atmospheric correction by common-point stacking [Tymofyeyeva and Fialko, 2015] to construct deformation time series [Xu et. al., 2017]. Then we project the horizontal GPS model and vertical GPS data into satellite line-of-sight directions separately. We first remove the horizontal GPS model from InSAR measurements and perform elevation-dependent atmospheric phase correction. Then we compute the discrepancy between the remaining InSAR measurements and vertical GPS data. We interpolate this discrepancy and remove it from the residual InSAR measurements. Finally, we restore the horizontal GPS model. Preliminary results show that fault creep over the San Jacinto fault, the Elsinore fault, and the San Andreas creeping section is clearly resolved. During the period of drought, the Central Valley of California was subsiding at a high rate (up to 40 cm/yr), while the city of San Jose is uplifting due to recharge, with a quaternary fault acting as a ground water barrier. These findings will be reported during the meeting.

CryoSat Level1b SAR/SARin BaselineC: Product Format and Algorithm Improvements

Science.gov (United States)

Scagliola, Michele; Fornari, Marco; Di Giacinto, Andrea; Bouffard, Jerome; Féménias, Pierre; Parrinello, Tommaso

2015-04-01

CryoSat was launched on the 8th April 2010 and is the first European ice mission dedicated to the monitoring of precise changes in the thickness of polar ice sheets and floating sea ice. Cryosat carries an innovative radar altimeter called the Synthetic Aperture Interferometric Altimeter (SIRAL), that transmits pulses at a high pulse repetition frequency thus making the received echoes phase coherent and suitable for azimuth processing. This allows to reach a significantly improved along track resolution with respect to traditional pulse-width limited altimeters. CryoSat is the first altimetry mission operating in SAR mode and continuous improvements in the Level1 Instrument Processing Facility (IPF1) are being identified, tested and validated in order to improve the quality of the Level1b products. The current IPF, Baseline B, was released in operation in February 2012. A reprocessing campaign followed, in order to reprocess the data since July 2010. After more than 2 years of development, the release in operations of Baseline C is expected in the first half of 2015. BaselineC Level1b products will be distributed in an updated format, including for example the attitude information (roll, pitch and yaw) and, for SAR/SARIN, the waveform length doubled with respect to Baseline B. Moreveor, various algorithm improvements have been identified: • a datation bias of about -0.5195 ms will be corrected (SAR/SARIn) • a range bias of about 0.6730 m will be corrected (SAR/SARIn) • a roll bias of 0.1062 deg and a pitch bias of 0.0520 deg • Surface sample stack weighting to filter out the single look echoes acquired at highest look angle, that results in a sharpening of the 20Hz waveforms With the operational release of BaselineC, the second CryoSat reprocessing campaign will be initiated, taking benefit of the upgrade implemented in the IPF1 processing chain but also at IPF2 level. The reprocessing campaign will cover the full Cryosat mission starting on 16th July 2010

ATMOSPHERIC PHASE DELAY IN SENTINEL SAR INTERFEROMETRY

Directory of Open Access Journals (Sweden)

V. Krishnakumar

2018-04-01

Full Text Available The repeat-pass Synthetic Aperture Radio Detection and Ranging (RADAR Interferometry (InSAR has been a widely used geodetic technique for observing the Earth’s surface, especially for mapping the Earth’s topography and deformations. However, InSAR measurements are prone to atmospheric errors. RADAR waves traverse the Earth’s atmosphere twice and experience a delay due to atmospheric refraction. The two major layers of the atmosphere (troposphere and ionosphere are mainly responsible for this delay in the propagating RADAR wave. Previous studies have shown that water vapour and clouds present in the troposphere and the Total Electron Content (TEC of the ionosphere are responsible for the additional path delay in the RADAR wave. The tropospheric refractivity is mainly dependent on pressure, temperature and partial pressure of water vapour. The tropospheric refractivity leads to an increase in the observed range. These induced propagation delays affect the quality of phase measurement and introduce errors in the topography and deformation fields. The effect of this delay was studied on a differential interferogram (DInSAR. To calculate the amount of tropospheric delay occurred, the meteorological data collected from the Spanish Agencia Estatal de Meteorología (AEMET and MODIS were used. The interferograms generated from Sentinel-1 carrying C-band Synthetic Aperture RADAR Single Look Complex (SLC images acquired on the study area are used. The study area consists of different types of scatterers exhibiting different coherence. The existing Saastamoinen model was used to perform a quantitative evaluation of the phase changes caused by pressure, temperature and humidity of the troposphere during the study. Unless the phase values due to atmospheric disturbances are not corrected, it is difficult to obtain accurate measurements. Thus, the atmospheric error correction is essential for all practical applications of DInSAR to avoid inaccurate

CryoSat Level1b SAR/SARin: quality improvements towards BaselineC

Science.gov (United States)

Scagliola, Michele; Fornari, Marco; Bouzinac, Catherine; Tagliani, Nicolas; Parrinello, Tommaso

2014-05-01

CryoSat was launched on the 8th April 2010 and it is the first European ice mission dedicated to monitoring precise changes in the thickness of polar ice sheets and floating sea ice over a 3-year period. Cryosat carries an innovative radar altimeter called the Synthetic Aperture Interferometric Altimeter (SIRAL), that transmits pulses at a high pulse repetition frequency thus making the received echoes phase coherent and suitable for azimuth processing. This allows to reach a significantly improved along track resolution with respect to traditional pulse-width limited altimeters. CryoSat is the first altimetry mission operating in SAR mode and continuous improvement in the Level1 Instrument Processing Facility (IPF1) are being identified, tested and validated in order to improve the quality of the Level1b products. Towards the release of the BaselineC of the CryoSat Level1b SAR/SARin products, that is expected during 2014, several improvements have been identified: • a datation bias of about -0.5195 ms will be corrected • a range bias of about -0.6730 m will be corrected • the waveform length in the Level1b product will be doubled with respect to BaselineB • improved processing for 1Hz echoes to have sharper waveforms • surface sample stack weighting to filter out the single look echoes acquired at highest look angle, that results in a sharpening of the 20Hz waveforms This poster details the main improvements that are foreseen to be included in the CryoSat Level1b SAR/SARin products in BaselineC.

SAR matrices: automated extraction of information-rich SAR tables from large compound data sets.

Science.gov (United States)

Wassermann, Anne Mai; Haebel, Peter; Weskamp, Nils; Bajorath, Jürgen

2012-07-23

We introduce the SAR matrix data structure that is designed to elucidate SAR patterns produced by groups of structurally related active compounds, which are extracted from large data sets. SAR matrices are systematically generated and sorted on the basis of SAR information content. Matrix generation is computationally efficient and enables processing of large compound sets. The matrix format is reminiscent of SAR tables, and SAR patterns revealed by different categories of matrices are easily interpretable. The structural organization underlying matrix formation is more flexible than standard R-group decomposition schemes. Hence, the resulting matrices capture SAR information in a comprehensive manner.

Characterizing and estimating noise in InSAR and InSAR time series with MODIS

Science.gov (United States)

Barnhart, William D.; Lohman, Rowena B.

2013-01-01

InSAR time series analysis is increasingly used to image subcentimeter displacement rates of the ground surface. The precision of InSAR observations is often affected by several noise sources, including spatially correlated noise from the turbulent atmosphere. Under ideal scenarios, InSAR time series techniques can substantially mitigate these effects; however, in practice the temporal distribution of InSAR acquisitions over much of the world exhibit seasonal biases, long temporal gaps, and insufficient acquisitions to confidently obtain the precisions desired for tectonic research. Here, we introduce a technique for constraining the magnitude of errors expected from atmospheric phase delays on the ground displacement rates inferred from an InSAR time series using independent observations of precipitable water vapor from MODIS. We implement a Monte Carlo error estimation technique based on multiple (100+) MODIS-based time series that sample date ranges close to the acquisitions times of the available SAR imagery. This stochastic approach allows evaluation of the significance of signals present in the final time series product, in particular their correlation with topography and seasonality. We find that topographically correlated noise in individual interferograms is not spatially stationary, even over short-spatial scales (<10 km). Overall, MODIS-inferred displacements and velocities exhibit errors of similar magnitude to the variability within an InSAR time series. We examine the MODIS-based confidence bounds in regions with a range of inferred displacement rates, and find we are capable of resolving velocities as low as 1.5 mm/yr with uncertainties increasing to ∼6 mm/yr in regions with higher topographic relief.

Interaction of avian infectious bronchitis virus S1 protein with heat ...

African Journals Online (AJOL)

The interaction between S1 and HSP47 was verified by colocalization experiment and co-immunoprecipitation of HeLa cell lysates expressing both proteins. The mapping studies localized the critical S1 sequences for this interaction to amino acids 340-470. Based on these results, we speculate that HSP47 is a functional ...

Wave directional spectrum from SAR imagery

Digital Repository Service at National Institute of Oceanography (India)

Fernandes, A.A.; Sarma, Y.V.B.; Menon, H.B.; Vethamony, P.

Gaussian smoothed SAR image spectra have been evaluated from 512 x 512 pixel subscenes of image mode ERS-1 SAR scenes off Goa, Visakhapatnam, Paradeep and Portugal. The two recently acquired scenes off Portugal showed the signature of swell...

Low-SAR metamaterial-inspired printed monopole antenna

Science.gov (United States)

Hossain, M. I.; Faruque, M. R. I.; Islam, M. T.; Ali, M. T.

2017-01-01

In this paper, a low-SAR metamaterial-embedded planar monopole antenna is introduced for a wireless communication system. A printed monopole antenna is designed for modern mobile, which operates in GSM, UMTS, LTE, WLAN, and Bluetooth frequency bands. A metamaterial structure is designed to use in the mobile handset with a multi-band printed monopole antenna. The finite integration technique of the CST microwave studio is used in this study. The measurement of antenna performances is taken in an anechoic chamber, and the SAR values are measured using COMOSAR system. The results indicate that metamaterial structure leads to reduce SAR without affecting antenna performance significantly. According to the measured results, the metamaterial attachment leads to reduce 87.7% peak SAR, 68.2% 1-g SAR, and 46.78% 10-g SAR compared to antenna without metamaterial.

Coronavirus 3CLpro proteinase cleavage sites: Possible relevance to SARS virus pathology

Directory of Open Access Journals (Sweden)

Blom Nikolaj

2004-06-01

Full Text Available Abstract Background Despite the passing of more than a year since the first outbreak of Severe Acute Respiratory Syndrome (SARS, efficient counter-measures are still few and many believe that reappearance of SARS, or a similar disease caused by a coronavirus, is not unlikely. For other virus families like the picornaviruses it is known that pathology is related to proteolytic cleavage of host proteins by viral proteinases. Furthermore, several studies indicate that virus proliferation can be arrested using specific proteinase inhibitors supporting the belief that proteinases are indeed important during infection. Prompted by this, we set out to analyse and predict cleavage by the coronavirus main proteinase using computational methods. Results We retrieved sequence data on seven fully sequenced coronaviruses and identified the main 3CL proteinase cleavage sites in polyproteins using alignments. A neural network was trained to recognise the cleavage sites in the genomes obtaining a sensitivity of 87.0% and a specificity of 99.0%. Several proteins known to be cleaved by other viruses were submitted to prediction as well as proteins suspected relevant in coronavirus pathology. Cleavage sites were predicted in proteins such as the cystic fibrosis transmembrane conductance regulator (CFTR, transcription factors CREB-RP and OCT-1, and components of the ubiquitin pathway. Conclusions Our prediction method NetCorona predicts coronavirus cleavage sites with high specificity and several potential cleavage candidates were identified which might be important to elucidate coronavirus pathology. Furthermore, the method might assist in design of proteinase inhibitors for treatment of SARS and possible future diseases caused by coronaviruses. It is made available for public use at our website: http://www.cbs.dtu.dk/services/NetCorona/.

The 5HT(1A) receptor ligand, S15535, antagonises G-protein activation: a [35S]GTPgammaS and [3H]S15535 autoradiography study.

Science.gov (United States)

Newman-Tancredi, A; Rivet, J; Chaput, C; Touzard, M; Verrièle, L; Millan, M J

1999-11-19

4-(Benzodioxan-5-yl)1-(indan-2-yl)piperazine (S15535) is a highly selective ligand at 5-HT(1A) receptors. The present study compared its autoradiographic labelling of rat brain sections with its functional actions, visualised by guanylyl-5'-[gamma-thio]-triphosphate ([35S]GTPgammaS) autoradiography, which affords a measure of G-protein activation. [3H]S15535 binding was highest in hippocampus, frontal cortex, entorhinal cortex, lateral septum, interpeduncular nucleus and dorsal raphe, consistent with specific labelling of 5-HT(1A) receptors. In functional studies, S15535 (10 microM) did not markedly stimulate G-protein activation in any brain region, but abolished the activation induced by the selective 5-HT(1A) agonist, (+)-8-hydroxy-dipropyl-aminotetralin ((+)-8-OH-DPAT, 1 microM), in structures enriched in [3H]S15535 labelling. S15535 did not block 5-HT-stimulated activation in caudate nucleus or substantia nigra, regions where (+)-8-OH-DPAT was ineffective and [3H]S15535 binding was absent. Interestingly, S15535 attenuated (+)-8-OH-DPAT and 5-HT-stimulated G-protein activation in dorsal raphe, a region in which S15535 is known to exhibit agonist properties in vivo [Lejeune, F., Millan, M.J., 1998. Induction of burst firing in ventral tegmental area dopaminergic neurons by activation of serotonin (5-HT)(1A) receptors: WAY100,635-reversible actions of the highly selective ligands, flesinoxan and S15535. Synapse 30, 172-180.]. The present data show that (i) [3H]S15535 labels pre- and post-synaptic populations of 5-HT(1A) sites in rat brain sections, (ii) S15535 exhibits antagonist properties at post-synaptic 5-HT(1A) receptors in corticolimbic regions, and (iii) S15535 also attenuates agonist-stimulated G-protein activation at raphe-localised 5-HT(1A) receptors.

DInSAR time series generation within a cloud computing environment: from ERS to Sentinel-1 scenario

Science.gov (United States)

Casu, Francesco; Elefante, Stefano; Imperatore, Pasquale; Lanari, Riccardo; Manunta, Michele; Zinno, Ivana; Mathot, Emmanuel; Brito, Fabrice; Farres, Jordi; Lengert, Wolfgang

2013-04-01

One of the techniques that will strongly benefit from the advent of the Sentinel-1 system is Differential SAR Interferometry (DInSAR), which has successfully demonstrated to be an effective tool to detect and monitor ground displacements with centimetre accuracy. The geoscience communities (volcanology, seismicity, …), as well as those related to hazard monitoring and risk mitigation, make extensively use of the DInSAR technique and they will take advantage from the huge amount of SAR data acquired by Sentinel-1. Indeed, such an information will successfully permit the generation of Earth's surface displacement maps and time series both over large areas and long time span. However, the issue of managing, processing and analysing the large Sentinel data stream is envisaged by the scientific community to be a major bottleneck, particularly during crisis phases. The emerging need of creating a common ecosystem in which data, results and processing tools are shared, is envisaged to be a successful way to address such a problem and to contribute to the information and knowledge spreading. The Supersites initiative as well as the ESA SuperSites Exploitation Platform (SSEP) and the ESA Cloud Computing Operational Pilot (CIOP) projects provide effective answers to this need and they are pushing towards the development of such an ecosystem. It is clear that all the current and existent tools for querying, processing and analysing SAR data are required to be not only updated for managing the large data stream of Sentinel-1 satellite, but also reorganized for quickly replying to the simultaneous and highly demanding user requests, mainly during emergency situations. This translates into the automatic and unsupervised processing of large amount of data as well as the availability of scalable, widely accessible and high performance computing capabilities. The cloud computing environment permits to achieve all of these objectives, particularly in case of spike and peak

SARS: Key factors in crisis management.

Science.gov (United States)

Tseng, Hsin-Chao; Chen, Thai-Form; Chou, Shieu-Ming

2005-03-01

This study was conducted at a single hospital selected in Taipei during the SARS (Severe Acute Respiratory Syndrome) outbreak from March to July, 2003 in Taiwan. During this period of time, 104 SARS patients were admitted to the hospital. There were no negative reports related to the selected hospital despite its being located right in the center of an area struck by the epidemic. The purpose of this study was to identify the key factors enabling the hospital to survive SARS unscathed. Data were collected from in-depth interviews with the nursing directors and nursing managers of the SARS units, along with a review of relevant hospital documents. The five key elements identified as survival factors during this SARS crisis are as follows: 1. good control of timing for crisis management, 2. careful decision-making, 3. thorough implementation, 4. effective communication, and 5. trust between management and employees. The results of this study reconfirmed the selected hospital as a model for good crisis management during the SARS epidemic.

Digital Labour: A Comment on César Bolaño’s tripleC-Reflection

Directory of Open Access Journals (Sweden)

Christian Fuchs

2015-03-01

Full Text Available This paper is a reflection on César Bolaño’s tripleC article “Digitalisation and Labour: A Rejoinder to Christian Fuchs”. It discusses aspects of digital labour that relate to the dialectic of production and consumption, the category of prosumption, productive labour, housework, the international division of digital labour, and Facebook use as a form of ideological transport labour.

The utility of protein structure as a predictor of site-wise dN/dS varies widely among HIV-1 proteins.

Science.gov (United States)

Meyer, Austin G; Wilke, Claus O

2015-10-06

Protein structure acts as a general constraint on the evolution of viral proteins. One widely recognized structural constraint explaining evolutionary variation among sites is the relative solvent accessibility (RSA) of residues in the folded protein. In influenza virus, the distance from functional sites has been found to explain an additional portion of the evolutionary variation in the external antigenic proteins. However, to what extent RSA and distance from a reference site in the protein can be used more generally to explain protein adaptation in other viruses and in the different proteins of any given virus remains an open question. To address this question, we have carried out an analysis of the distribution and structural predictors of site-wise dN/dS in HIV-1. Our results indicate that the distribution of dN/dS in HIV follows a smooth gamma distribution, with no special enrichment or depletion of sites with dN/dS at or above one. The variation in dN/dS can be partially explained by RSA and distance from a reference site in the protein, but these structural constraints do not act uniformly among the different HIV-1 proteins. Structural constraints are highly predictive in just one of the three enzymes and one of three structural proteins in HIV-1. For these two proteins, the protease enzyme and the gp120 structural protein, structure explains between 30 and 40% of the variation in dN/dS. Finally, for the gp120 protein of the receptor-binding complex, we also find that glycosylation sites explain just 2% of the variation in dN/dS and do not explain gp120 evolution independently of either RSA or distance from the apical surface. © 2015 The Author(s).

Estimates of ocean wave heights and attenuation in sea ice using the SAR wave mode on Sentinel-1A

Science.gov (United States)

Ardhuin, Fabrice; Collard, Fabrice; Chapron, Bertrand; Girard-Ardhuin, Fanny; Guitton, Gilles; Mouche, Alexis; Stopa, Justin E.

2015-04-01

Swell evolution from the open ocean into sea ice is poorly understood, in particular the amplitude attenuation expected from scattering and dissipation. New synthetic aperture radar (SAR) data from Sentinel-1A wave mode reveal intriguing patterns of bright oscillating lines shaped like instant noodles. We investigate cases in which the oscillations are in the azimuth direction, around a straight line in the range direction. This observation is interpreted as the distortion by the SAR processing of crests from a first swell, due to the presence of a second swell. Since deviations from a straight line should be proportional to the orbital velocity toward the satellite, swell height can be estimated, from 1.5 to 5 m in the present case. The evolution of this 13 s period swell across the ice pack is consistent with an exponential attenuation on a length scale of 200 km.

SARS - Diagnosis

Indian Academy of Sciences (India)

SARS - Diagnosis. Mainly by exclusion of known causes of atypical pneumonia; * X ray Chest; * PCR on body fluids- primers defined by WHO centres available from website.-ve result does not exclude SARS. * Sequencing of amplicons; * Viral Cultures – demanding; * Antibody tests.

Design and characterization of a 12-bit 10MS/s 10mW pipelined SAR ADC for CZT-based hard X-ray imager

Science.gov (United States)

Xue, F.; Gao, W.; Duan, Y.; Zheng, R.; Hu, Y.

2018-02-01

This paper presents a 12-bit pipelined successive approximation register (SAR) ADC for CZT-based hard X-ray Imager. The proposed ADC is comprised of a first-stage 6-bit SAR-based Multiplying Digital Analog Converter (MDAC) and a second-stage 8-bit SAR ADC. A novel MDAC architecture using Vcm-based Switching method is employed to maximize the energy efficiency and improve the linearity of the ADC. Moreover, the unit-capacitor array instead of the binary-weighted capacitor array is adopted to improve the conversion speed and linearity of the ADC in the first-stage MDAC. In addition, a new layout design method for the binary-weighted capacitor array is proposed to reduce the capacitor mismatches and make the routing become easier and less-time-consuming. Finally, several radiation-hardened-by-design technologies are adopted in the layout design against space radiation effects. The prototype chip was fabricated in 0.18 μm mixed-signal 1.8V/3.3V process and operated at 1.8 V supply. The chip occupies a core area of only 0.58 mm2. The proposed pipelined SAR ADC achieves a peak signal-to-noise-and-distortion ratio (SNDR) of 66.7 dB and a peak spurious-free dynamic range (SFDR) of 78.6 dB at 10 MS/s sampling rate and consumes 10 mW. The figure of merit (FOM) of the proposed ADC is 0.56 pJ/conversion-step.

Detecting Landscape Disturbance at the Nasca Lines Using SAR Data Collected from Airborne and Satellite Platforms

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Douglas C. Comer

2017-10-01

Full Text Available We used synthetic aperture radar (SAR data collected over Peru’s Lines and Geoglyphs of the Nasca and Palpa World Heritage Site to detect and measure landscape disturbance threatening world-renowned archaeological features and ecosystems. We employed algorithms to calculate correlations between pairs of SAR returns, collected at different times, and generate correlation images. Landscape disturbances even on the scale of pedestrian travel are discernible in correlation images generated from airborne, L-band SAR. Correlation images derived from C-band SAR data collected by the European Space Agency’s Sentinel-1 satellites also provide detailed landscape change information. Because the two Sentinel-1 satellites together have a repeat pass interval that can be as short as six days, products derived from their data can not only provide information on the location and degree of ground disturbance, but also identify a time window of about one to three weeks during which disturbance must have occurred. For Sentinel-1, this does not depend on collecting data in fine-beam modes, which generally sacrifice the size of the area covered for a higher spatial resolution. We also report on pixel value stretching for a visual analysis of SAR data, quantitative assessment of landscape disturbance, and statistical testing for significant landscape change.

Coral reef detection using SAR/RADARSAT-1 images at Costa dos Corais, PE/AL, Brazil

Directory of Open Access Journals (Sweden)

Frederico de Moraes Rudorff

2008-06-01

Full Text Available The present work aimed to examine the potentials of SAR RADARSAT-1 images to detect emergent coral reefs at the Environmental Protection Area of "Costa dos Corais". Multi-view filters were applied and tested for speckle noise reduction. A digital unsupervised classification based on image segmentation was performed and the classification accuracy was evaluated by an error matrix built between the SAR image classification and a reference map obtained from a TM Landsat-5 classification. The adaptative filters showed the best results for speckle suppression and border preservation, especially the Kuan, Gamma MAP, Lee, Frost and Enhanced Frost filters. Small similarity and area thresholds (5 and 10, respectively were used for the image segmentation due to the reduced dimensions and the narrow and elongated forms of the reefs. The classification threshold of 99% had a better user's accuracy, but a lower producer's accuracy because it is a more restrictive threshold; therefore, it may be possible that it had a greater omission on reef classification. The results indicate that SAR images have a good potential for the detection of emergent coral reefs.O presente trabalho examinou o potencial de imagens SAR do RADARSAT-1 na detecção de recifes de coral expostos na Área de Proteção Ambiental das Costa dos Corais. Filtros de multi-visada foram aplicados e testados para redução do ruído speckle. Uma classificação não supervisionada baseada em uma imagem segmentada foi realizada e a acurácia da classificação foi avaliada através de uma matriz de erro construída entre a imagem classificada e o mapa de referência. Os filtros adaptativos apresentaram os melhores desempenhos para supressão de speckle e preservação de bordas, especialmente os filtros Kuan, Gamma MAP, Lee, Frost and Enhanced Frost. Os pequenos limiares de similaridade e de área (10 e 5, respectivamente foram melhores devido à forma fina e alongada dos recifes. O limiar de

False-Positive Results in a Recombinant Severe Acute Respiratory Syndrome-Associated Coronavirus (SARS-CoV) Nucleocapsid Enzyme-Linked Immunosorbent Assay Due to HCoV-OC43 and HCoV-229E Rectified by Western Blotting with Recombinant SARS-CoV Spike Polypeptide

OpenAIRE

Woo, Patrick C. Y.; Lau, Susanna K. P.; Wong, Beatrice H. L.; Chan, Kwok-Hung; Hui, Wai-Ting; Kwan, Grace S. W.; Peiris, J. S. Malik; Couch, Robert B.; Yuen, Kwok-Yung

2004-01-01

Using paired serum samples obtained from patients with illness associated with increases in anti-human coronavirus OC43 (HCoV-OC43) or anti-HCoV-229E antibodies, we examined the possibility of false-positive results detected in a recombinant severe acute respiratory syndrome (SARS)-associated coronavirus (SARS-CoV) nucleocapsid protein immunoglobulin G enzyme-linked immunosorbent assay (ELISA). Three of the 21 and 1 of the 7 convalescent-phase serum samples from persons with increases in anti...

sarA negatively regulates Staphylococcus epidermidis biofilm formation by modulating expression of 1 MDa extracellular matrix binding protein and autolysis‐dependent release of eDNA

DEFF Research Database (Denmark)

Christner, Martin; Heinze, Constanze; Busch, Michael

2012-01-01

to biofilm formation in mutant 1585ΔsarA. Increased eDNA amounts indirectly resulted from upregulation of metalloprotease SepA, leading to boosted processing of autolysin AtlE, in turn inducing augmented autolysis and release of eDNA. Hence, this study identifies sarA as a negative regulator of Embp‐ and e...

An Adaptive Ship Detection Scheme for Spaceborne SAR Imagery

Directory of Open Access Journals (Sweden)

Xiangguang Leng

2016-08-01

Full Text Available With the rapid development of spaceborne synthetic aperture radar (SAR and the increasing need of ship detection, research on adaptive ship detection in spaceborne SAR imagery is of great importance. Focusing on practical problems of ship detection, this paper presents a highly adaptive ship detection scheme for spaceborne SAR imagery. It is able to process a wide range of sensors, imaging modes and resolutions. Two main stages are identified in this paper, namely: ship candidate detection and ship discrimination. Firstly, this paper proposes an adaptive land masking method using ship size and pixel size. Secondly, taking into account the imaging mode, incidence angle, and polarization channel of SAR imagery, it implements adaptive ship candidate detection in spaceborne SAR imagery by applying different strategies to different resolution SAR images. Finally, aiming at different types of typical false alarms, this paper proposes a comprehensive ship discrimination method in spaceborne SAR imagery based on confidence level and complexity analysis. Experimental results based on RADARSAT-1, RADARSAT-2, TerraSAR-X, RS-1, and RS-3 images demonstrate that the adaptive scheme proposed in this paper is able to detect ship targets in a fast, efficient and robust way.

SAR Imaging through the Earth’s Ionosphere

Science.gov (United States)

2013-11-06

Xiaoqing Pi, Anthony Freeman, Bruce Chapman, Paul Rosen, and Zhenhong Li . Imaging ionospheric inhomogeneities using spaceborne synthetic aperture radar. J...resolution SAR phase correction. IEEE Trans. Aerosp. Electron. Syst., 30(3):827–835, 1994. [30] Lianlin Li and Fang Li . Ionosphere tomography based on...Manduchi and G. A. Mian . Accuracy analysis for correlation-based image registartion algorithms. In Proceedings of the 1993 IEEE International

Blocking peptides against HBV: PreS1 protein selected from a phage display library

International Nuclear Information System (INIS)

Wang, Wei; Liu, Yang; Zu, Xiangyang; Jin, Rui; Xiao, Gengfu

2011-01-01

Highlights: → Successfully selected specific PreS1-interacting peptides by using phage displayed library. → Alignment of the positive phage clones revealed a consensus PreS1 binding motif. → A highly enriched peptide named P7 had a strong binding ability for PreS1. → P7 could block PreS1 attachment. -- Abstract: The PreS1 protein is present on the outermost part of the hepatitis B virus (HBV) surface and has been shown to have a pivotal function in viral infectivity and assembly. The development of reagents with high affinity and specificity for PreS1 is of great significance for early diagnosis and treatment of HBV infection. A phage display library of dodecapeptide was screened for interactions with purified PreS1 protein. Alignment of the positive phage clones revealed a putative consensus PreS1 binding motif of HX n HX m HP/R. Moreover, a peptide named P7 (KHMHWHPPALNT) was highly enriched and occurred with a surprisingly high frequency of 72%. A thermodynamic study revealed that P7 has a higher binding affinity to PreS1 than the other peptides. Furthermore, P7 was able to abrogate the binding of HBV virions to the PreS1 antibody, suggesting that P7 covers key functional sites on the native PreS1 protein. This newly isolated peptide may, therefore, be a new therapeutic candidate for the treatment of HBV. The consensus motif could be modified to deliver imaging, diagnostic, and therapeutic agents to tissues affected by HBV.

Blocking peptides against HBV: PreS1 protein selected from a phage display library

Energy Technology Data Exchange (ETDEWEB)

Wang, Wei; Liu, Yang; Zu, Xiangyang; Jin, Rui [State Key Laboratory of Virology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071 (China); Xiao, Gengfu, E-mail: xiaogf@wh.iov.cn [State Key Laboratory of Virology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071 (China)

2011-09-09

Highlights: {yields} Successfully selected specific PreS1-interacting peptides by using phage displayed library. {yields} Alignment of the positive phage clones revealed a consensus PreS1 binding motif. {yields} A highly enriched peptide named P7 had a strong binding ability for PreS1. {yields} P7 could block PreS1 attachment. -- Abstract: The PreS1 protein is present on the outermost part of the hepatitis B virus (HBV) surface and has been shown to have a pivotal function in viral infectivity and assembly. The development of reagents with high affinity and specificity for PreS1 is of great significance for early diagnosis and treatment of HBV infection. A phage display library of dodecapeptide was screened for interactions with purified PreS1 protein. Alignment of the positive phage clones revealed a putative consensus PreS1 binding motif of HX{sub n}HX{sub m}HP/R. Moreover, a peptide named P7 (KHMHWHPPALNT) was highly enriched and occurred with a surprisingly high frequency of 72%. A thermodynamic study revealed that P7 has a higher binding affinity to PreS1 than the other peptides. Furthermore, P7 was able to abrogate the binding of HBV virions to the PreS1 antibody, suggesting that P7 covers key functional sites on the native PreS1 protein. This newly isolated peptide may, therefore, be a new therapeutic candidate for the treatment of HBV. The consensus motif could be modified to deliver imaging, diagnostic, and therapeutic agents to tissues affected by HBV.

Partial dispensability of Djp1's J domain in peroxisomal protein import in Saccharomyces cerevisiae results from genetic redundancy with another class II J protein, Caj1.

Science.gov (United States)

Dobriyal, Neha; Tripathi, Prerna; Sarkar, Susrita; Tak, Yogesh; Verma, Amit K; Sahi, Chandan

2017-05-01

J proteins are obligate co-chaperones of Hsp70s. Via their signature J domain, all J proteins interact with their partner Hsp70s and stimulate their weak ATPase activity, which is vital for Hsp70 functions. The dependency of J proteins on their J domain is such that mutations in critical amino acids in the J domain often results into a null phenotype for a particular J protein. Here, we show that the J domain of Djp1, a cytosolic J protein important for peroxisomal protein import in Saccharomyces cerevisiae, is partially dispensable. A complete deletion of Djp1 J domain resulted into only partial loss in peroxisomal protein import function. Instead, the C-terminal domain of Djp1 was found to be essential for proper localization of the peroxisomal targeted GFP-PTS1. Furthermore, we show that Caj1, another cytosolic J protein, also has some role in peroxisomal protein import. Caj1 was found to be partially redundant with Djp1 as cells lacking both Djp1 and Caj1 resulted into a much more severe defect in GFP-PTS1 localization. Based on these results, we propose that dispensability of J domains could be attributed to genetic redundancy between different J proteins sharing common structural topology and cellular localization.

Spaceborne Differential SAR Interferometry: Data Analysis Tools for Deformation Measurement

Directory of Open Access Journals (Sweden)

Michele Crosetto

2011-02-01

Full Text Available This paper is focused on spaceborne Differential Interferometric SAR (DInSAR for land deformation measurement and monitoring. In the last two decades several DInSAR data analysis procedures have been proposed. The objective of this paper is to describe the DInSAR data processing and analysis tools developed at the Institute of Geomatics in almost ten years of research activities. Four main DInSAR analysis procedures are described, which range from the standard DInSAR analysis based on a single interferogram to more advanced Persistent Scatterer Interferometry (PSI approaches. These different procedures guarantee a sufficient flexibility in DInSAR data processing. In order to provide a technical insight into these analysis procedures, a whole section discusses their main data processing and analysis steps, especially those needed in PSI analyses. A specific section is devoted to the core of our PSI analysis tools: the so-called 2+1D phase unwrapping procedure, which couples a 2D phase unwrapping, performed interferogram-wise, with a kind of 1D phase unwrapping along time, performed pixel-wise. In the last part of the paper, some examples of DInSAR results are discussed, which were derived by standard DInSAR or PSI analyses. Most of these results were derived from X-band SAR data coming from the TerraSAR-X and CosmoSkyMed sensors.

Covalent versus Charge Transfer Modification of Graphene/Carbon-Nanotubes with Vitamin B1: Co/N/S-C Catalyst toward Excellent Oxygen Reduction.

Science.gov (United States)

Vij, Varun; Tiwari, Jitendra N; Kim, Kwang S

2016-06-29

High-performance nonprecious cathodic catalysts for oxygen reduction are highly demanded for low-temperature polymer electrolyte membrane fuel cells (PEMFCs). Here, we report a noble-meta- free, nitrogen and sulfur codoped graphene(G)/carbon-nanotube(CNT) material decorated with Co nanoparticles (NPs), which serve as catalytic sites for excellent oxygen reduction reaction (ORR) in basic and acidic media. Out of the cathodic catalysts synthesized by either covalent (cov) or charge transfer (CT) modification of graphen oxide (GO) with thiamine (Th: Vitamin B1), ThG/CNT/Co-cov shows more promising ORR properties than ThG/CNT/Co-CT. Catalyst ThG/CNT/Co-cov exhibits onset/halfwave potentials of 0.95/0.86 V in 0.1 M KOH and 0.92/0.83 V in 0.1 M HClO4, which are comparable to those of commercial catalyst Pt/C (0.95/0.86 V). As compared to Pt/C, our catalyst shows higher current densities of 6.72 mA cm(-2) in basic medium and 7.08 mA cm(-2) in acidic medium at 0.55 V (vs reversible hydrogen electrode (RHE)). It also exhibits better catalytic stability and methanol tolerance. High catalytic efficiency and stability of ThG/CNT/Co-cov show a promising prospect of materialization of PEMFCs for clean energy production.

Receptor binding radiotracers for the angiotensin II receptor: radioiodinated [Sar1, Ile8]angiotensin II

International Nuclear Information System (INIS)

Gibson, R.E.; Beauchamp, H.T.; Fioravanti, C.; Brenner, N.; Burns, H.D.

1994-01-01

The potential for imaging the angiotensin II receptor was evaluated using the radioiodinated peptide antagonist [ 125 I][Sar 1 , Ile 8 ]angiotensin II. The radioligand provides a receptor-mediated signal in several tissues in rat (kidneys, adrenal and liver). The receptor-mediated signal of 3% ID/g kidney cortex should be sufficient to permit imaging, at least via SPECT. The radiotracer is sensitive to reductions in receptor concentration and can be used to define in vivo dose-occupancy curves of angiotensin II receptor ligands. Receptor-mediated images of [ 123 I][Sar 1 , Ile 8 ]angiotensin II were obtained in the rat kidney and Rhesus monkey liver. (author)

On Signal Modeling of Moon-Based Synthetic Aperture Radar (SAR Imaging of Earth

Directory of Open Access Journals (Sweden)

Zhen Xu

2018-03-01

Full Text Available The Moon-based Synthetic Aperture Radar (Moon-Based SAR, using the Moon as a platform, has a great potential to offer global-scale coverage of the earth’s surface with a high revisit cycle and is able to meet the scientific requirements for climate change study. However, operating in the lunar orbit, Moon-Based SAR imaging is confined within a complex geometry of the Moon-Based SAR, Moon, and Earth, where both rotation and revolution have effects. The extremely long exposure time of Moon-Based SAR presents a curved moving trajectory and the protracted time-delay in propagation makes the “stop-and-go” assumption no longer valid. Consequently, the conventional SAR imaging technique is no longer valid for Moon-Based SAR. This paper develops a Moon-Based SAR theory in which a signal model is derived. The Doppler parameters in the context of lunar revolution with the removal of ‘stop-and-go’ assumption are first estimated, and then characteristics of Moon-Based SAR imaging’s azimuthal resolution are analyzed. In addition, a signal model of Moon-Based SAR and its two-dimensional (2-D spectrum are further derived. Numerical simulation using point targets validates the signal model and enables Doppler parameter estimation for image focusing.

SAR11 bacteria linked to ocean anoxia and nitrogen loss

DEFF Research Database (Denmark)

Tsementzi, Despina; Wu, Jieying; Deutsch, Samuel

2016-01-01

Bacteria of the SAR11 clade constitute up to one half of all microbial cells in the oxygen-rich surface ocean. SAR11 bacteria are also abundant in oxygen minimum zones (OMZs), where oxygen falls below detection and anaerobic microbes have vital roles in converting bioavailable nitrogen to N2 gas...... activity. These results link SAR11 to pathways of ocean nitrogen loss, redefining the ecological niche of Earth’s most abundant organismal group....

Surface-Layer (S-Layer) Proteins Sap and EA1 Govern the Binding of the S-Layer-Associated Protein BslO at the Cell Septa of Bacillus anthracis

Science.gov (United States)

Kern, Valerie J.; Kern, Justin W.; Theriot, Julie A.; Schneewind, Olaf

2012-01-01

The Gram-positive pathogen Bacillus anthracis contains 24 genes whose products harbor the structurally conserved surface-layer (S-layer) homology (SLH) domain. Proteins endowed with the SLH domain associate with the secondary cell wall polysaccharide (SCWP) following secretion. Two such proteins, Sap and EA1, have the unique ability to self-assemble into a paracrystalline layer on the surface of bacilli and form S layers. Other SLH domain proteins can also be found within the S layer and have been designated Bacillus S-layer-associated protein (BSLs). While both S-layer proteins and BSLs bind the same SCWP, their deposition on the cell surface is not random. For example, BslO is targeted to septal peptidoglycan zones, where it catalyzes the separation of daughter cells. Here we show that an insertional lesion in the sap structural gene results in elongated chains of bacilli, as observed with a bslO mutant. The chain length of the sap mutant can be reduced by the addition of purified BslO in the culture medium. This complementation in trans can be explained by an increased deposition of BslO onto the surface of sap mutant bacilli that extends beyond chain septa. Using fluorescence microscopy, we observed that the Sap S layer does not overlap the EA1 S layer and slowly yields to the EA1 S layer in a growth-phase-dependent manner. Although present all over bacilli, Sap S-layer patches are not observed at septa. Thus, we propose that the dynamic Sap/EA1 S-layer coverage of the envelope restricts the deposition of BslO to the SCWP at septal rings. PMID:22609927

Spaceborne Polarimetric SAR Interferometry: Performance Analysis and Mission Concepts

Directory of Open Access Journals (Sweden)

Shane R. Cloude

2005-12-01

Full Text Available We investigate multichannel imaging radar systems employing coherent combinations of polarimetry and interferometry (Pol-InSAR. Such systems are well suited for the extraction of bio- and geophysical parameters by evaluating the combined scattering from surfaces and volumes. This combination leads to several important differences between the design of Pol-InSAR sensors and conventional single polarisation SAR interferometers. We first highlight these differences and then investigate the Pol-InSAR performance of two proposed spaceborne SAR systems (ALOS/PalSAR and TerraSAR-L operating in repeat-pass mode. For this, we introduce the novel concept of a phase tube which enables (1 a quantitative assessment of the Pol-InSAR performance, (2 a comparison between different sensor configurations, and (3 an optimization of the instrument settings for different Pol-InSAR applications. The phase tube may hence serve as an interface between system engineers and application-oriented scientists. The performance analysis reveals major limitations for even moderate levels of temporal decorrelation. Such deteriorations may be avoided in single-pass sensor configurations and we demonstrate the potential benefits from the use of future bi- and multistatic SAR interferometers.

Keynote presentation : SAR systems

NARCIS (Netherlands)

Halsema, D. van; Otten, M.P.G.; Maas, A.P.M.; Bolt, R.J.; Anitori, L.

2011-01-01

Synthetic Aperture Radar (SAR) systems are becoming increasingly important sensors in as well the military environment as in the civilian market. In this keynote presentation an overview will be given over more than 2 decades of SAR system∼ and SAR application development at TNO in the Netherlands.

Modulation of intracellular protein degradation by SSB1-SIS1 chaperon system in yeast S. cerevisiae.

Science.gov (United States)

Ohba, M

1997-06-09

In prokaryotes, DnaK-DnaJ chaperon is involved in the protein degradation catalyzed by proteases La and ClpA/B complex as shown in E. coli. To extend this into eukaryotic cells, we examined the effects of hsp70 genes, SSA1 and SSB1, and DnaJ genes, SIS1 and YDJ1, on the growth of proteasome subunit mutants of the yeast S. cerevisiae. The results identified SSB1 and SIS1 as a pair of chaperon genes specifically involved in efficient protein turnover in the yeast, whose overexpression suppressed the growth defects caused by the proteasome mutations. Moreover, a single amino acid substitution in the putative peptide-binding site of SSB1 protein profoundly enhanced the suppression activity, indicating that the activity is mediated by the peptide-binding activity of this chaperon. Thus SSB1, with its partner DnaJ, SIS1, modulates the efficiency of protein turnover through its chaperon activity.

Broadening of neutralization activity to directly block a dominant antibody-driven SARS-coronavirus evolution pathway.

Directory of Open Access Journals (Sweden)

Jianhua Sui

2008-11-01

Full Text Available Phylogenetic analyses have provided strong evidence that amino acid changes in spike (S protein of animal and human SARS coronaviruses (SARS-CoVs during and between two zoonotic transfers (2002/03 and 2003/04 are the result of positive selection. While several studies support that some amino acid changes between animal and human viruses are the result of inter-species adaptation, the role of neutralizing antibodies (nAbs in driving SARS-CoV evolution, particularly during intra-species transmission, is unknown. A detailed examination of SARS-CoV infected animal and human convalescent sera could provide evidence of nAb pressure which, if found, may lead to strategies to effectively block virus evolution pathways by broadening the activity of nAbs. Here we show, by focusing on a dominant neutralization epitope, that contemporaneous- and cross-strain nAb responses against SARS-CoV spike protein exist during natural infection. In vitro immune pressure on this epitope using 2002/03 strain-specific nAb 80R recapitulated a dominant escape mutation that was present in all 2003/04 animal and human viruses. Strategies to block this nAb escape/naturally occurring evolution pathway by generating broad nAbs (BnAbs with activity against 80R escape mutants and both 2002/03 and 2003/04 strains were explored. Structure-based amino acid changes in an activation-induced cytidine deaminase (AID "hot spot" in a light chain CDR (complementarity determining region alone, introduced through shuffling of naturally occurring non-immune human VL chain repertoire or by targeted mutagenesis, were successful in generating these BnAbs. These results demonstrate that nAb-mediated immune pressure is likely a driving force for positive selection during intra-species transmission of SARS-CoV. Somatic hypermutation (SHM of a single VL CDR can markedly broaden the activity of a strain-specific nAb. The strategies investigated in this study, in particular the use of structural

The economic impact of SARS in Beijing, China.

Science.gov (United States)

Beutels, Philippe; Jia, Na; Zhou, Qing-Yi; Smith, Richard; Cao, Wu-Chun; de Vlas, Sake J

2009-11-01

To document the impact of the severe acute respiratory syndrome (SARS) outbreak in Beijing on indicators of social and economic activity. Associations between time series of daily and monthly SARS cases and deaths and volume of public train, airplane and cargo transport, tourism, household consumption patterns and gross domestic product growth in Beijing were investigated using the cross-correlation function. Significant correlation coefficients were found for all indicators except wholesale accounts and expenditures on necessities, with the most significant correlations occurring with a delay of 1 day to 1 month. Especially leisure activities, local and international transport and tourism were affected by SARS particularly in May 2003. Much of this consumption was merely postponed; but irrecoverable losses to the tourist sector alone were estimated at about US$ 1.4 bn, or 300 times the cost of treatment for SARS cases in Beijing.

Significant Wave Height under Hurricane Irma derived from SAR Sentinel-1 Data

Science.gov (United States)

Lehner, S.; Pleskachevsky, A.; Soloviev, A.; Fujimura, A.

2017-12-01

The 2017 Atlantic hurricane season was with three major hurricanes a particular active one. The Category 4 hurricane Irma made landfall on the Florida Keys on September 10th 2017 and was imaged several times by ESAs Sentinel-1 satellites in C-band and the TerraSAR-X satellite in X-band. The high resolution TerraSAR-X imagery showed the footprint of individual tornadoes on the sea surface together with their turbulent wake imaged as a dark line due to increased turbulence. The water-cloud structures of the tornadoes are analyzed and their sea surface structure is compared to optical and IR cloud imagery. An estimate of the wind field using standard XMOD algorithms is provided, although saturating under the strong rain and high wind speed conditions. Imaging the hurricanes by space radar gives the opportunity to observe the sea surface and thus measure the wind field and the sea state under hurricane conditions through the clouds even in this severe weather, although rain features, which are usually not observed in SAR become visible due to damping effects. The Copernicus Sentinel-1 A and B satellites, which are operating in C-band provided several images of the sea surface under hurricane Irma, Jose and Maria. The data were acquired daily and converted into measurements of sea surface wind field u10 and significant wave height Hs over a swath width of 280km about 1000 km along the orbit. The wind field of the hurricanes as derived by CMOD is provided by NOAA operationally on their web server. In the hurricane cases though the wind speed saturates at 20 m/sec and is thus too low in the area of hurricane wind speed. The technique to derive significant wave height is new though and does not show any calibration issues. This technique provides for the first time measurements of the areal coverage and distribution of the ocean wave height as caused by a hurricane on SAR wide swath images. Wave heights up to 10 m were measured under the forward quadrant of the hurricane

A SAR Observation and Numerical Study on Ocean Surface Imprints of Atmospheric Vortex Streets

Directory of Open Access Journals (Sweden)

William G. Pichel

2008-05-01

Full Text Available The sea surface imprints of Atmospheric Vortex Street (AVS off Aleutian Volcanic Islands, Alaska were observed in two RADARSAT-1 Synthetic Aperture Radar (SAR images separated by about 11 hours. In both images, three pairs of distinctive vortices shedding in the lee side of two volcanic mountains can be clearly seen. The length and width of the vortex street are about 60-70 km and 20 km, respectively. Although the AVS’s in the two SAR images have similar shapes, the structure of vortices within the AVS is highly asymmetrical. The sea surface wind speed is estimated from the SAR images with wind direction input from Navy NOGAPS model. In this paper we present a complete MM5 model simulation of the observed AVS. The surface wind simulated from the MM5 model is in good agreement with SAR-derived wind. The vortex shedding rate calculated from the model run is about 1 hour and 50 minutes. Other basic characteristics of the AVS including propagation speed of the vortex, Strouhal and Reynolds numbers favorable for AVS generation are also derived. The wind associated with AVS modifies the cloud structure in the marine atmospheric boundary layer. The AVS cloud pattern is also observed on a MODIS visible band image taken between the two RADARSAT SAR images. An ENVISAT advance SAR image taken 4 hours after the second RADARSAT SAR image shows that the AVS has almost vanished.

Satellite SAR interferometric techniques applied to emergency mapping

Science.gov (United States)

Stefanova Vassileva, Magdalena; Riccardi, Paolo; Lecci, Daniele; Giulio Tonolo, Fabio; Boccardo Boccardo, Piero; Chiesa, Giuliana; Angeluccetti, Irene

2017-04-01

This paper aim to investigate the capabilities of the currently available SAR interferometric algorithms in the field of emergency mapping. Several tests have been performed exploiting the Copernicus Sentinel-1 data using the COTS software ENVI/SARscape 5.3. Emergency Mapping can be defined as "creation of maps, geo-information products and spatial analyses dedicated to providing situational awareness emergency management and immediate crisis information for response by means of extraction of reference (pre-event) and crisis (post-event) geographic information/data from satellite or aerial imagery". The conventional differential SAR interferometric technique (DInSAR) and the two currently available multi-temporal SAR interferometric approaches, i.e. Permanent Scatterer Interferometry (PSI) and Small BAseline Subset (SBAS), have been applied to provide crisis information useful for the emergency management activities. Depending on the considered Emergency Management phase, it may be distinguished between rapid mapping, i.e. fast provision of geospatial data regarding the area affected for the immediate emergency response, and monitoring mapping, i.e. detection of phenomena for risk prevention and mitigation activities. In order to evaluate the potential and limitations of the aforementioned SAR interferometric approaches for the specific rapid and monitoring mapping application, five main factors have been taken into account: crisis information extracted, input data required, processing time and expected accuracy. The results highlight that DInSAR has the capacity to delineate areas affected by large and sudden deformations and fulfills most of the immediate response requirements. The main limiting factor of interferometry is the availability of suitable SAR acquisition immediately after the event (e.g. Sentinel-1 mission characterized by 6-day revisiting time may not always satisfy the immediate emergency request). PSI and SBAS techniques are suitable to produce

One carbon metabolism in SAR11 pelagic marine bacteria.

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Jing Sun

Full Text Available The SAR11 Alphaproteobacteria are the most abundant heterotrophs in the oceans and are believed to play a major role in mineralizing marine dissolved organic carbon. Their genomes are among the smallest known for free-living heterotrophic cells, raising questions about how they successfully utilize complex organic matter with a limited metabolic repertoire. Here we show that conserved genes in SAR11 subgroup Ia (Candidatus Pelagibacter ubique genomes encode pathways for the oxidation of a variety of one-carbon compounds and methyl functional groups from methylated compounds. These pathways were predicted to produce energy by tetrahydrofolate (THF-mediated oxidation, but not to support the net assimilation of biomass from C1 compounds. Measurements of cellular ATP content and the oxidation of (14C-labeled compounds to (14CO(2 indicated that methanol, formaldehyde, methylamine, and methyl groups from glycine betaine (GBT, trimethylamine (TMA, trimethylamine N-oxide (TMAO, and dimethylsulfoniopropionate (DMSP were oxidized by axenic cultures of the SAR11 strain Ca. P. ubique HTCC1062. Analyses of metagenomic data showed that genes for C1 metabolism occur at a high frequency in natural SAR11 populations. In short term incubations, natural communities of Sargasso Sea microbial plankton expressed a potential for the oxidation of (14C-labeled formate, formaldehyde, methanol and TMAO that was similar to cultured SAR11 cells and, like cultured SAR11 cells, incorporated a much larger percentage of pyruvate and glucose (27-35% than of C1 compounds (2-6% into biomass. Collectively, these genomic, cellular and environmental data show a surprising capacity for demethylation and C1 oxidation in SAR11 cultures and in natural microbial communities dominated by SAR11, and support the conclusion that C1 oxidation might be a significant conduit by which dissolved organic carbon is recycled to CO(2 in the upper ocean.

Spacial Variation in SAR Images of Different Resolution for Agricultural Fields

DEFF Research Database (Denmark)

Sandholt, Inge; Skriver, Henning

1999-01-01

The spatial variation in two types of Synthetic Aperture Radar (SAR) images covering agricultural fields is analysed. C-band polarimetric SAR data from the Danish airborne SAR, EMISAR, have been compared to space based ERS-1 C-band SAR with respect to scale and effect of polarization. The general...

The Seamless SAR Archive (SSARA) Project and Other SAR Activities at UNAVCO

Science.gov (United States)

Baker, S.; Crosby, C. J.; Meertens, C. M.; Fielding, E. J.; Bryson, G.; Buechler, B.; Nicoll, J.; Baru, C.

2014-12-01

The seamless synthetic aperture radar archive (SSARA) implements a seamless distributed access system for SAR data and derived data products (i.e. interferograms). SSARA provides a unified application programming interface (API) for SAR data search and results at the Alaska Satellite Facility and UNAVCO (WInSAR and EarthScope data archives) through the use of simple web services. A federated query service was developed using the unified APIs, providing users a single search interface for both archives. Interest from the international community has prompted an effort to incorporate ESA's Virtual Archive 4 Geohazard Supersites and Natural Laboratories (GSNL) collections and other archives into the federated query service. SSARA also provides Digital Elevation Model access for topographic correction via a simple web service through OpenTopography and tropospheric correction products through JPL's OSCAR service. Additionally, UNAVCO provides data storage capabilities for WInSAR PIs with approved TerraSAR-X and ALOS-2 proposals which allows easier distribution to US collaborators on associated proposals and facilitates data access through the SSARA web services. Further work is underway to incorporate federated data discovery for GSNL across SAR, GPS, and seismic datasets provided by web services from SSARA, GSAC, and COOPEUS.

Fluorescent S-layer fusion proteins

International Nuclear Information System (INIS)

Kainz, B.

2010-01-01

This work describes the construction and characterisation of fluorescent S-layer fusion proteins used as building blocks for the fabrication of nanostructured monomolecular biocoatings on silica particles with defined fluorescence properties. The S-layer protein SgsE of Geobacillus stearothermophilus NRS 2004/3a was fused with the pH-dependant cyan, green and yellow variant of the green fluorescent protein (GFP) and the red fluorescent protein mRFP1. These fluorescent S-layer fusion proteins, acting as scaffold and optical sensing element simultaneously, were able to reassemble in solution and on silica particles forming 2D nanostructures with p2 lattice symmetry (a=11 ±0.5 nm, b=14 ±0.4 nm, g=80 ±1 o ). The pH-dependant fluorescence behaviour was studied with fluorimetry, confocal microscopy and flow cytometry. These fluorescent S-layer fusion proteins can be used as pH-sensor. 50% of the fluorescence intensity decreases at their calculated pKa values (pH6 - pH5). The fluorescence intensity of the GFP variants vanished completely between pH4 and pH3 whereas the chromophore of the red protein mRFP1 was only slightly affected in acidic conditions. At the isoelectric point of the S-layer coated silica particles (pH4.6 ±0.2) an increase in particle aggregation was detected by flow cytometry. The cyan and yellow fluorescent proteins were chosen to create a bi-fluorescent S-layer tandem fusion protein with the possibility for resonance energy transfer (FRET). A transfer efficiency of 20% and a molecular distance between the donor (ECFP) and acceptor (YFP) chromophores of around 6.2 nm could be shown. This bi-fluorescent ECFP-SgsE-YFP tandem fusion protein was able to reassemble on solid surfaces. The remarkable combination of fluorescence and self-assembly and the design of bi-functional S-layer tandem fusion protein matrices makes them to a promising tool in nanobiotechnology. (author) [de

Phase correction and error estimation in InSAR time series analysis

Science.gov (United States)

Zhang, Y.; Fattahi, H.; Amelung, F.

2017-12-01

During the last decade several InSAR time series approaches have been developed in response to the non-idea acquisition strategy of SAR satellites, such as large spatial and temporal baseline with non-regular acquisitions. The small baseline tubes and regular acquisitions of new SAR satellites such as Sentinel-1 allows us to form fully connected networks of interferograms and simplifies the time series analysis into a weighted least square inversion of an over-determined system. Such robust inversion allows us to focus more on the understanding of different components in InSAR time-series and its uncertainties. We present an open-source python-based package for InSAR time series analysis, called PySAR (https://yunjunz.github.io/PySAR/), with unique functionalities for obtaining unbiased ground displacement time-series, geometrical and atmospheric correction of InSAR data and quantifying the InSAR uncertainty. Our implemented strategy contains several features including: 1) improved spatial coverage using coherence-based network of interferograms, 2) unwrapping error correction using phase closure or bridging, 3) tropospheric delay correction using weather models and empirical approaches, 4) DEM error correction, 5) optimal selection of reference date and automatic outlier detection, 6) InSAR uncertainty due to the residual tropospheric delay, decorrelation and residual DEM error, and 7) variance-covariance matrix of final products for geodetic inversion. We demonstrate the performance using SAR datasets acquired by Cosmo-Skymed and TerraSAR-X, Sentinel-1 and ALOS/ALOS-2, with application on the highly non-linear volcanic deformation in Japan and Ecuador (figure 1). Our result shows precursory deformation before the 2015 eruptions of Cotopaxi volcano, with a maximum uplift of 3.4 cm on the western flank (fig. 1b), with a standard deviation of 0.9 cm (fig. 1a), supporting the finding by Morales-Rivera et al. (2017, GRL); and a post-eruptive subsidence on the same

The effect of severe acute respiratory syndrome (SARS) on emergency airway management.

Science.gov (United States)

Wong, Evelyn; Ho, Khoy Kheng

2006-07-01

From early March 2003 to late May 2003, severe acute respiratory syndrome (SARS) was detected in Singapore. The increase in workload and new infection control procedures were thought to affect resuscitation and airway management. Our aim was to study the effects of wearing of personal protective equipment (PPE) and powered air-purifying respirator (PAPR) and the restriction in the number of resuscitation personnel on airway management during the SARS crisis. Data was collected prospectively through an ongoing emergency airway registry. The data was divided into three periods: (1) before PPE was instituted from 1 November 2002 to 31 March 2003; (2) during SARS (when PPE use was mandatory) from 1 April to 31 July 2003; (3) post-SARs (when PPE use was non-mandatory but encouraged) from 1 August to 31 March 2004. There was no change in patient demographics during the three periods. There were significant increases in the proportion of resuscitation cases and airway interventions during the SARS period compared to the pre-SARS period. The resident medical officer intubation rate decreased from 45.1% pre-SARS to 35.2% during SARS and 17.7% post-SARS. The complication rates were 10.5%, 9.9% and 9.4% in periods 1-3, respectively. Restriction in the number of healthcare staff attending to each patient may have influenced the department's decision to allow only the most confident or experienced personnel to manage the airway. The exposure of junior medical officers in emergency airway management during SARS and the immediate post-SARS period was decreased. This trend should be monitored further and intervention may be necessary should it continue to decline.

High-Level Performance Modeling of SAR Systems

Science.gov (United States)

Chen, Curtis

2006-01-01

SAUSAGE (Still Another Utility for SAR Analysis that s General and Extensible) is a computer program for modeling (see figure) the performance of synthetic- aperture radar (SAR) or interferometric synthetic-aperture radar (InSAR or IFSAR) systems. The user is assumed to be familiar with the basic principles of SAR imaging and interferometry. Given design parameters (e.g., altitude, power, and bandwidth) that characterize a radar system, the software predicts various performance metrics (e.g., signal-to-noise ratio and resolution). SAUSAGE is intended to be a general software tool for quick, high-level evaluation of radar designs; it is not meant to capture all the subtleties, nuances, and particulars of specific systems. SAUSAGE was written to facilitate the exploration of engineering tradeoffs within the multidimensional space of design parameters. Typically, this space is examined through an iterative process of adjusting the values of the design parameters and examining the effects of the adjustments on the overall performance of the system at each iteration. The software is designed to be modular and extensible to enable consideration of a variety of operating modes and antenna beam patterns, including, for example, strip-map and spotlight SAR acquisitions, polarimetry, burst modes, and squinted geometries.

Mapping of ESE-1 subdomains required to initiate mammary epithelial cell transformation via a cytoplasmic mechanism

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Tentler John J

2011-08-01

Full Text Available Abstract Background The ETS family transcription factor ESE-1 is often overexpressed in human breast cancer. ESE-1 initiates transformation of MCF-12A cells via a non-transcriptional, cytoplasmic process that is mediated by a unique 40-amino acid serine and aspartic acid rich (SAR subdomain, whereas, ESE-1's nuclear transcriptional property is required to maintain the transformed phenotype of MCF7, ZR-75-1 and T47D breast cancer cells. Results To map the minimal functional nuclear localization (NLS and nuclear export (NES signals, we fused in-frame putative NLS and NES motifs between GFP and the SAR domain. Using these GFP constructs as reporters of subcellular localization, we mapped a single NLS to six basic amino acids (242HGKRRR247 in the AT-hook and two CRM1-dependent NES motifs, one to the pointed domain (NES1: 102LCNCALEELRL112 and another to the DNA binding domain (DBD, (NES2: 275LWEFIRDILI284. Moreover, analysis of a putative NLS located in the DBD (316GQKKKNSN323 by a similar GFP-SAR reporter or by internal deletion of the DBD, revealed this sequence to lack NLS activity. To assess the role of NES2 in regulating ESE-1 subcellular localization and subsequent transformation potency, we site-specifically mutagenized NES2, within full-length GFP-ESE-1 and GFP-NES2-SAR reporter constructs. These studies show that site-specific mutation of NES2 completely abrogates ESE-1 transforming activity. Furthermore, we show that exclusive cytoplasmic targeting of the SAR domain is sufficient to initiate transformation, and we report that an intact SAR domain is required, since block mutagenesis reveals that an intact SAR domain is necessary to maintain its full transforming potency. Finally, using a monoclonal antibody targeting the SAR domain, we demonstrate that the SAR domain contains a region accessible for protein - protein interactions. Conclusions These data highlight that ESE-1 contains NLS and NES signals that play a critical role in

AUTOMATIC INTERPRETATION OF HIGH RESOLUTION SAR IMAGES: FIRST RESULTS OF SAR IMAGE SIMULATION FOR SINGLE BUILDINGS

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J. Tao

2012-09-01

Full Text Available Due to the all-weather data acquisition capabilities, high resolution space borne Synthetic Aperture Radar (SAR plays an important role in remote sensing applications like change detection. However, because of the complex geometric mapping of buildings in urban areas, SAR images are often hard to interpret. SAR simulation techniques ease the visual interpretation of SAR images, while fully automatic interpretation is still a challenge. This paper presents a method for supporting the interpretation of high resolution SAR images with simulated radar images using a LiDAR digital surface model (DSM. Line features are extracted from the simulated and real SAR images and used for matching. A single building model is generated from the DSM and used for building recognition in the SAR image. An application for the concept is presented for the city centre of Munich where the comparison of the simulation to the TerraSAR-X data shows a good similarity. Based on the result of simulation and matching, special features (e.g. like double bounce lines, shadow areas etc. can be automatically indicated in SAR image.

Reverse genetics of SARS-related coronavirus using vaccinia virus-based recombination.

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Sjoerd H E van den Worm

Full Text Available Severe acute respiratory syndrome (SARS is a zoonotic disease caused by SARS-related coronavirus (SARS-CoV that emerged in 2002 to become a global health concern. Although the original outbreak was controlled by classical public health measures, there is a real risk that another SARS-CoV could re-emerge from its natural reservoir, either in its original form or as a more virulent or pathogenic strain; in which case, the virus would be difficult to control in the absence of any effective antiviral drugs or vaccines. Using the well-studied SARS-CoV isolate HKU-39849, we developed a vaccinia virus-based SARS-CoV reverse genetic system that is both robust and biosafe. The SARS-CoV genome was cloned in separate vaccinia virus vectors, (vSARS-CoV-5prime and vSARS-CoV-3prime as two cDNAs that were subsequently ligated to create a genome-length SARS-CoV cDNA template for in vitro transcription of SARS-CoV infectious RNA transcripts. Transfection of the RNA transcripts into permissive cells led to the recovery of infectious virus (recSARS-CoV. Characterization of the plaques produced by recSARS-CoV showed that they were similar in size to the parental SARS-CoV isolate HKU-39849 but smaller than the SARS-CoV isolate Frankfurt-1. Comparative analysis of replication kinetics showed that the kinetics of recSARS-CoV replication are similar to those of SARS-CoV Frankfurt-1, although the titers of virus released into the culture supernatant are approximately 10-fold less. The reverse genetic system was finally used to generate a recSARS-CoV reporter virus expressing Renilla luciferase in order to facilitate the analysis of SARS-CoV gene expression in human dendritic cells (hDCs. In parallel, a Renilla luciferase gene was also inserted into the genome of human coronavirus 229E (HCoV-229E. Using this approach, we demonstrate that, in contrast to HCoV-229E, SARS-CoV is not able to mediate efficient heterologous gene expression in hDCs.

Monitoring of Three Case Studies of Creeping Landslides in Ecuador using L-band SAR Interferometry (InSAR)

Science.gov (United States)

Mayorga Torres, T. M.; Mohseni Aref, M.

2015-12-01

Tannia Mayorga Torres1,21 Universidad Central del Ecuador. Faculty of Geology, Mining, Oil, and Environment 2 Hubert H. Humphrey Fellowship 2015-16 IntroductionLandslides lead to human and economic losses across the country, mainly in the winter season. On the other hand, satellite radar data has cost-effective benefits due to open-source software and free availability of data. With the purpose of establishing an early warning system of landslide-related surface deformation, three case studies were designed in the Coast, Sierra (Andean), and Oriente (jungle) regions. The objective of this work was to assess the capability of L-band InSAR to get phase information. For the calculation of the interferograms in Repeat Orbit Interferometry PACkage, the displacement was detected as the error and was corrected. The coherence images (Figure 1) determined that L-band is suitable for InSAR processing. Under this frame, as a first approach, the stacking DInSAR technique [1] was applied in the case studies [2]; however, due to lush vegetation and steep topography, it is necessary to apply advanced InSAR techniques [3]. The purpose of the research is to determine a pattern of data acquisition and successful results to understand the spatial and temporal ground movements associated with landslides. The further work consists of establishing landslide inventories to combine phases of SAR images to generate maps of surface deformation in Tumba-San Francisco and Guarumales to compare the results with ground-based measurements to determine the maps' accuracy. References[1] Sandwell D., Price E. (1998). Phase gradient approach to stacking interferograms. Journal of Geophysical Research, Vol. 103, N. B12, pp. 30,183-30,204. [2] Mayorga T., Platzeck G. (2014). Using DInSAR as a tool to detect unstable terrain areas in an Andes region in Ecuador. NH3.5-Blue Poster B298, Vol. 16, EGU2014-16203. Austria. [3] Wasowski J., Bovenga F. (2014). Investigating landslides and unstable slopes with

A capacitive DAC with custom 3-D 1-fF MOM unit capacitors optimized for fast-settling routing in high speed SAR ADCs

International Nuclear Information System (INIS)

Chen Chixiao; Xiang Jixuan; Chen Huabin; Xu Jun; Ye Fan; Li Ning; Ren Junyan

2015-01-01

Asynchronous successive approximation register (SAR) analog-to-digital converters (ADC) feature high energy efficiency but medium performance. From the point of view of speed, the key bottleneck is the unit capacitor size. In this paper, a small size three-dimensional (3-D) metal—oxide—metal (MOM) capacitor is proposed. The unit capacitor has a capacitance of 1-fF. It shapes as an umbrella, which is designed for fast settling consideration. A comparison among the proposed capacitor with other 3-D MOM capacitors is also given in the paper. To demonstrate the effectiveness of the MOM capacitor, a 6-b capacitive DAC is implemented in TSMC 1P9M 65 nm LP CMOS technology. The DAC consumes a power dissipation of 0.16 mW at the rate of 100 MS/s, excluding a source-follower based output buffer. Static measurement result shows that INL is less than ±1 LSB and DNL is less than ±0.5 LSB. In addition, a 100 MS/s 9-bit SAR ADC with the proposed 3-D capacitor is simulated. (paper)

Monitoring Building Deformation with InSAR: Experiments and Validation

Science.gov (United States)

Yang, Kui; Yan, Li; Huang, Guoman; Chen, Chu; Wu, Zhengpeng

2016-01-01

Synthetic Aperture Radar Interferometry (InSAR) techniques are increasingly applied for monitoring land subsidence. The advantages of InSAR include high accuracy and the ability to cover large areas; nevertheless, research validating the use of InSAR on building deformation is limited. In this paper, we test the monitoring capability of the InSAR in experiments using two landmark buildings; the Bohai Building and the China Theater, located in Tianjin, China. They were selected as real examples to compare InSAR and leveling approaches for building deformation. Ten TerraSAR-X images spanning half a year were used in Permanent Scatterer InSAR processing. These extracted InSAR results were processed considering the diversity in both direction and spatial distribution, and were compared with true leveling values in both Ordinary Least Squares (OLS) regression and measurement of error analyses. The detailed experimental results for the Bohai Building and the China Theater showed a high correlation between InSAR results and the leveling values. At the same time, the two Root Mean Square Error (RMSE) indexes had values of approximately 1 mm. These analyses show that a millimeter level of accuracy can be achieved by means of InSAR technique when measuring building deformation. We discuss the differences in accuracy between OLS regression and measurement of error analyses, and compare the accuracy index of leveling in order to propose InSAR accuracy levels appropriate for monitoring buildings deformation. After assessing the advantages and limitations of InSAR techniques in monitoring buildings, further applications are evaluated. PMID:27999403

Monitoring Building Deformation with InSAR: Experiments and Validation

Directory of Open Access Journals (Sweden)

Kui Yang

2016-12-01

Full Text Available Synthetic Aperture Radar Interferometry (InSAR techniques are increasingly applied for monitoring land subsidence. The advantages of InSAR include high accuracy and the ability to cover large areas; nevertheless, research validating the use of InSAR on building deformation is limited. In this paper, we test the monitoring capability of the InSAR in experiments using two landmark buildings; the Bohai Building and the China Theater, located in Tianjin, China. They were selected as real examples to compare InSAR and leveling approaches for building deformation. Ten TerraSAR-X images spanning half a year were used in Permanent Scatterer InSAR processing. These extracted InSAR results were processed considering the diversity in both direction and spatial distribution, and were compared with true leveling values in both Ordinary Least Squares (OLS regression and measurement of error analyses. The detailed experimental results for the Bohai Building and the China Theater showed a high correlation between InSAR results and the leveling values. At the same time, the two Root Mean Square Error (RMSE indexes had values of approximately 1 mm. These analyses show that a millimeter level of accuracy can be achieved by means of InSAR technique when measuring building deformation. We discuss the differences in accuracy between OLS regression and measurement of error analyses, and compare the accuracy index of leveling in order to propose InSAR accuracy levels appropriate for monitoring buildings deformation. After assessing the advantages and limitations of InSAR techniques in monitoring buildings, further applications are evaluated.

URBAN MODELLING PERFORMANCE OF NEXT GENERATION SAR MISSIONS

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U. G. Sefercik

2017-09-01

Full Text Available In synthetic aperture radar (SAR technology, urban mapping and modelling have become possible with revolutionary missions TerraSAR-X (TSX and Cosmo-SkyMed (CSK since 2007. These satellites offer 1m spatial resolution in high-resolution spotlight imaging mode and capable for high quality digital surface model (DSM acquisition for urban areas utilizing interferometric SAR (InSAR technology. With the advantage of independent generation from seasonal weather conditions, TSX and CSK DSMs are much in demand by scientific users. The performance of SAR DSMs is influenced by the distortions such as layover, foreshortening, shadow and double-bounce depend up on imaging geometry. In this study, the potential of DSMs derived from convenient 1m high-resolution spotlight (HS InSAR pairs of CSK and TSX is validated by model-to-model absolute and relative accuracy estimations in an urban area. For the verification, an airborne laser scanning (ALS DSM of the study area was used as the reference model. Results demonstrated that TSX and CSK urban DSMs are compatible in open, built-up and forest land forms with the absolute accuracy of 8–10 m. The relative accuracies based on the coherence of neighbouring pixels are superior to absolute accuracies both for CSK and TSX.

SARS CTL vaccine candidates; HLA supertype-, genome-wide scanning and biochemical validation

DEFF Research Database (Denmark)

Sylvester-Hvid, C; Nielsen, M; Lamberth, K

2004-01-01

. Exact knowledge of how the immune system handles protein antigens would allow for the identification of such linear sequences directly from genomic/proteomic sequence information (Lauemoller et al., Rev Immunogenet 2001: 2: 477-91). The latter was recently established when a causative coronavirus (SARS...... of the HLA supertypes and identified almost 100 potential vaccine candidates. These should be further validated in SARS survivors and used for vaccine formulation. We suggest that immunobioinformatics may become a fast and valuable tool in rational vaccine design....

SARS CTL vaccine candidates; HLA supertype-, genome-wide scanning and biochemical validation

DEFF Research Database (Denmark)

Sylvester-Hvid, C.; Nielsen, Morten; Lamberth, K.

2004-01-01

. Exact knowledge of how the immune system handles protein antigens would allow for the identification of such linear sequences directly, from genomic/proteomic sequence information (Lauemoller et al., Rev Immunogenet 2001: 2: 477-91). The latter was recently established when a causative coronavirus (SARS...... of the HLA supertypes and identified almost 100 potential vaccine candidates. These should be further validated in SARS survivors and used for vaccine formulation. We suggest that immunobioinformatics may become a fast and valuable tool in rational vaccine design....

The Р60-S6K1 isoform of ribosomal protein S6 kinase 1 is a product of alternative mRNA translation

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I. V. Zaiets

2018-07-01

Full Text Available Ribosomal protein S6 kinase 1 (S6K1 is a well-known downstream effector of mTORC1 (mechanistic target of rapamycin complex 1 participating primarily in the regulation of cell growth and metabolism. Deregulation of mTOR/S6K1 signaling can promote numerous human pathologies, including cancer, neurodegeneration, cardiovascular disease, and metabolic disorders. As existing data suggest, the S6K1 gene encodes several protein isoforms, including p85-S6K1, p70-S6K1, and p60-S6K1. The two of these isoforms, p85-S6K1 and p70-S6K1, were extensively studied to date. The origin and functional significance of the p60-S6K1 isoform remains a mystery, however, it was suggested that the isoform could be a product of alternative S6K1 mRNA translation. Herein we report the generation of HEK-293 cells exclusively expressing p60-S6K1 as a result of CRISPR/Cas9-mediated inactivation of p85/p70-S6K1 translation. Moreover, the generated modified cells displayed the elevated level of p60-S6K1 expression compared to that in wild-type HEK-293 cells. Our data confirm an assumption that p60-S6K1 is alternatively translated, most probably, from the common for both p70- and p85-S6K1 mRNA transcript and reveal a link between p60-S6K1 expression and such cellular processes as cell proliferation and motility. In addition, our findings indicate that the p60-S6K1 isoform of S6K1 may undergo a mode of regulation distinct from p70- and p85-S6K1 due to the absence of mTOR-regulated p60-S6K1 phosphorylation at T389 that is important for S6K1 activation.

SAR Target Recognition via Supervised Discriminative Dictionary Learning and Sparse Representation of the SAR-HOG Feature

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Shengli Song

2016-08-01

Full Text Available Automatic target recognition (ATR in synthetic aperture radar (SAR images plays an important role in both national defense and civil applications. Although many methods have been proposed, SAR ATR is still very challenging due to the complex application environment. Feature extraction and classification are key points in SAR ATR. In this paper, we first design a novel feature, which is a histogram of oriented gradients (HOG-like feature for SAR ATR (called SAR-HOG. Then, we propose a supervised discriminative dictionary learning (SDDL method to learn a discriminative dictionary for SAR ATR and propose a strategy to simplify the optimization problem. Finally, we propose a SAR ATR classifier based on SDDL and sparse representation (called SDDLSR, in which both the reconstruction error and the classification error are considered. Extensive experiments are performed on the MSTAR database under standard operating conditions and extended operating conditions. The experimental results show that SAR-HOG can reliably capture the structures of targets in SAR images, and SDDL can further capture subtle differences among the different classes. By virtue of the SAR-HOG feature and SDDLSR, the proposed method achieves the state-of-the-art performance on MSTAR database. Especially for the extended operating conditions (EOC scenario “Training 17 ∘ —Testing 45 ∘ ”, the proposed method improves remarkably with respect to the previous works.

Detection of moving humans in UHF wideband SAR

Science.gov (United States)

Sjögren, Thomas K.; Ulander, Lars M. H.; Frölind, Per-Olov; Gustavsson, Anders; Stenström, Gunnar; Jonsson, Tommy

2014-06-01

In this paper, experimental results for UHF wideband SAR imaging of humans on an open field and inside a forest is presented. The results show ability to detect the humans and suggest possible ways to improve the results. In the experiment, single channel wideband SAR mode of the UHF UWB system LORA developed by Swedish Defence Research Agency (FOI). The wideband SAR mode used in the experiment was from 220 to 450 MHz, thus with a fractional bandwidth of 0.68. Three humans walking and one stationary were available in the scene with one of the walking humans in the forest. The signature of the human in the forest appeared on the field, due to azimuth shift from the positive range speed component. One human on the field and the one in the forest had approximately the same speed and walking direction. The signatures in the SAR image were compared as a function of integration time based on focusing using the average relative speed of these given by GPS logs. A signal processing gain was obtained for the human in forest until approximately 15 s and 35 s for the human on the field. This difference is likely explained by uneven terrain and trees in the way, causing a non-straight walking path.

Sentinel-3 SAR Altimetry Toolbox

Science.gov (United States)

Benveniste, Jerome; Lucas, Bruno; DInardo, Salvatore

2015-04-01

) and raster images (JPEG, PNG, etc.). Several kinds of computations can be done within BRAT involving combinations of data fields that the user can save for posterior reuse or using the already embedded formulas that include the standard oceanographic altimetry formulas. The Radar Altimeter Tutorial, that contains a strong introduction to altimetry, showing its applications in different fields such as Oceanography, Cryosphere, Geodesy, Hydrology among others. Included are also "use cases", with step-by-step examples, on how to use the toolbox in the different contexts. The Sentinel-3 SAR Altimetry Toolbox shall benefit from the current BRAT version. While developing the Sentinel-3 SAR Altimetry Toolbox we will revamp of the Graphical User Interface and provide, among other enhancements, support for reading the upcoming S3 datasets and specific "use-cases" for SAR altimetry in order to train the users and make them aware of the great potential of SAR altimetry for coastal and inland applications. As for any open source framework, contributions from users having developed their own functions are welcome. The Kick Off is expected to be happen in Q1 2015 and have the 1st version available before the launch of Sentinel-3.

An Opportunistic Pathogen Afforded Ample Opportunities: Middle East Respiratory Syndrome Coronavirus

Directory of Open Access Journals (Sweden)

Ian M. Mackay

2017-12-01

Full Text Available The human coronaviruses (CoV include HCoV-229E, HCoV-OC43, HCoV-NL63, and HCoV-HKU1, some of which have been known for decades. The severe acute respiratory syndrome (SARS CoV briefly emerged into the human population but was controlled. In 2012, another novel severely human pathogenic CoV—the Middle East Respiratory Syndrome (MERS-CoV—was identified in the Kingdom of Saudi Arabia; 80% of over 2000 human cases have been recorded over five years. Targeted research remains key to developing control strategies for MERS-CoV, a cause of mild illness in its camel reservoir. A new therapeutic toolbox being developed in response to MERS is also teaching us more about how CoVs cause disease. Travel-related cases continue to challenge the world’s surveillance and response capabilities, and more data are needed to understand unexplained primary transmission. Signs of genetic change have been recorded, but it remains unclear whether there is any impact on clinical disease. How camels came to carry the virus remains academic to the control of MERS. To date, human-to-human transmission has been inefficient, but virus surveillance, characterisation, and reporting are key to responding to any future change. MERS-CoV is not currently a pandemic threat; it is spread mainly with the aid of human habit and error.

Transduced PEP-1-ribosomal protein S3 (rpS3) ameliorates 12-O-tetradecanoylphorbol-13-acetate-induced inflammation in mice

International Nuclear Information System (INIS)

Ahn, Eun Hee; Kim, Dae Won; Kang, Hye Won; Shin, Min Jae; Won, Moo Ho; Kim, Joon; Kim, Dong Joon; Kwon, Oh-Shin; Kang, Tae-Cheon; Han, Kyu Hyung; Park, Jinseu; Eum, Won Sik; Choi, Soo Young

2010-01-01

This study investigated the preventive effect of ribosomal protein S3 (rpS3) on 12-O-tetradecanoylphorbol-13-acetate (TPA)-induced ear edema in mice. A cell permeable expression vector PEP-1-rpS3 was constructed. Topical application of the vector markedly inhibited TPA-induced expression levels of cyclooxygenase-2 (COX-2) and pro-inflammatory cytokines. Application of PEP-1-rpS3 also resulted in a significant reduction in the activation of nuclear factor-kappa B (NF-kB) and mitogen-activated protein kinase (MAPK) in TPA-treated ears. These results indicate that PEP-1-rpS3 inhibits inflammatory response cytokines and enzymes by blocking NF-kB and MAPK, prompting the suggestion that PEP-1-rpS3 can be used as a therapeutic agent against skin inflammation.

The Interaction Pattern between a Homology Model of 40S Ribosomal S9 Protein of Rhizoctonia solani and 1-Hydroxyphenaize by Docking Study

Directory of Open Access Journals (Sweden)

Seema Dharni

2014-01-01

Full Text Available 1-Hydroxyphenazine (1-OH-PHZ, a natural product from Pseudomonas aeruginosa strain SD12, was earlier reported to have potent antifungal activity against Rhizoctonia solani. In the present work, the antifungal activity of 1-OH-PHZ on 40S ribosomal S9 protein was validated by molecular docking approach. 1-OH-PHZ showed interaction with two polar contacts with residues, Arg69 and Phe19, which inhibits the synthesis of fungal protein. Our study reveals that 1-OH-PHZ can be a potent inhibitor of 40S ribosomal S9 protein of R. solani that may be a promising approach for the management of fungal diseases.

LTE modem power consumption, SAR and RF signal strength emulation

DEFF Research Database (Denmark)

Musiige, Deogratius; Vincent, Laulagnet; Anton, François

2012-01-01

This paper presents a new methodology for emulating the LTE modem power consumption, emitted SAR and RF signal strength when transmitting an LTE signal. The inputs of the methodology are: modem logical/protocol commands, time advance, near-field specifier, and antenna characteristics. The power...... emulation model(s) are computed by a two layer 451 neural network based on physical power measurements. SAR is emulated by polynomial interpolation models based on FDTD simulations. The accuracies of the mathematical function approximations for the emulation models of power and SAR are 5.19% and 3...

Simultaneous Observation Data of GB-SAR/PiSAR to Detect Flooding in an Urban Area

Directory of Open Access Journals (Sweden)

Manabu Watanabe

2010-01-01

Full Text Available We analyzed simultaneous observation data with ground-based synthetic aperture radar (GB-SAR and airborne SAR (PiSAR over a flood test site at which a simple house was constructed in a field. The PiSAR σ∘ under flood condition was 0.9 to 3.4 dB higher than that under nonflood condition. GB-SAR gives high spatial resolution as we could identify a single scattering component and a double bounce component from the house. GB-SAR showed that the σ∘ difference between the flooding and nonflooding conditions came from the double bounce scattering. We also confirm that the entropy is a sensitive parameter in the eigenvalue decomposition parameters, if the scattering process is dominated by the double bounce scattering. We conclude that σ∘ and entropy are a good parameter to be used to detect flooding, not only in agricultural and forest regions, but also in urban areas. We also conclude that GB-SAR is a powerful tool to supplement satellite and airborne observation, which has a relatively low spatial resolution.

Simultaneous Observation Data of GB-SAR/PiSAR to Detect Flooding in an Urban Area

Directory of Open Access Journals (Sweden)

Shimada Masanobu

2010-01-01

Full Text Available Abstract We analyzed simultaneous observation data with ground-based synthetic aperture radar (GB-SAR and airborne SAR (PiSAR over a flood test site at which a simple house was constructed in a field. The PiSAR under flood condition was 0.9 to 3.4 dB higher than that under nonflood condition. GB-SAR gives high spatial resolution as we could identify a single scattering component and a double bounce component from the house. GB-SAR showed that the difference between the flooding and nonflooding conditions came from the double bounce scattering. We also confirm that the entropy is a sensitive parameter in the eigenvalue decomposition parameters, if the scattering process is dominated by the double bounce scattering. We conclude that and entropy are a good parameter to be used to detect flooding, not only in agricultural and forest regions, but also in urban areas. We also conclude that GB-SAR is a powerful tool to supplement satellite and airborne observation, which has a relatively low spatial resolution.

Protein Recognition in Drug-Induced DNA Alkylation: When the Moonlight Protein GAPDH Meets S23906-1/DNA Minor Groove Adducts.

Science.gov (United States)

Savreux-Lenglet, Gaëlle; Depauw, Sabine; David-Cordonnier, Marie-Hélène

2015-11-05

DNA alkylating drugs have been used in clinics for more than seventy years. The diversity of their mechanism of action (major/minor groove; mono-/bis-alkylation; intra-/inter-strand crosslinks; DNA stabilization/destabilization, etc.) has undoubtedly major consequences on the cellular response to treatment. The aim of this review is to highlight the variety of established protein recognition of DNA adducts to then particularly focus on glyceraldehyde-3-phosphate dehydrogenase (GAPDH) function in DNA adduct interaction with illustration using original experiments performed with S23906-1/DNA adduct. The introduction of this review is a state of the art of protein/DNA adducts recognition, depending on the major or minor groove orientation of the DNA bonding as well as on the molecular consequences in terms of double-stranded DNA maintenance. It reviews the implication of proteins from both DNA repair, transcription, replication and chromatin maintenance in selective DNA adduct recognition. The main section of the manuscript is focusing on the implication of the moonlighting protein GAPDH in DNA adduct recognition with the model of the peculiar DNA minor groove alkylating and destabilizing drug S23906-1. The mechanism of action of S23906-1 alkylating drug and the large variety of GAPDH cellular functions are presented prior to focus on GAPDH direct binding to S23906-1 adducts.

Cryosat Level1b SAR/Sarin: Improving the Quality of the Baseline C Products

Science.gov (United States)

Scagliola, M.; Fornari, M.; Tagliani, N.; Frommknecht, B.; Bouffard, J.; Parrinello, T.

2014-12-01

CryoSat was launched on the 8th April 2010 and it is the first European ice mission dedicated to monitoring precise changes in the thickness of polar ice sheets and floating sea ice over a 3-year period. Cryosat carries an innovative radar altimeter called the Synthetic Aperture Interferometric Altimeter (SIRAL), that transmits pulses at a high pulse repetition frequency thus making the received echoes phase coherent and suitable for azimuth processing. This allows to reach a significantly improved along track resolution with respect to traditional pulse-width limited altimeters. CryoSat is the first altimetry mission operating in SAR mode and continuous improvement in the Level1 Instrument Processing Facility (IPF1) are being identified, tested and validated in order to improve the quality of the Level1b products. Towards the release of the BaselineC of the CryoSat Level1b SAR/SARin products, that is expected at the end of 2014, several improvements have been identified: a datation bias of about -0.5195 ms will be corrected a range bias of about 0.6730 m will be corrected The range window size will be doubled with respect to BaselineB, so that the in Level1b products the waveforms will be doubled too Improved processing for 1Hz echoes to have sharper waveforms Surface sample stack weighting to filter out the single look echoes acquired at highest look angle, that results in a sharpening of the 20Hz waveforms Additional auxiliary information related to the mispointing angles of the instrument as well as to the stacks of single look echoes will be added This poster details the main quality improvements that are foreseen to be included in the CryoSat Level1b SAR/SARin products in BaselineC.

Bistatic SAR: Imagery & Image Products.

Energy Technology Data Exchange (ETDEWEB)

Yocky, David A.; Wahl, Daniel E.; Jakowatz, Charles V,

2014-10-01

While typical SAR imaging employs a co-located (monostatic) RADAR transmitter and receiver, bistatic SAR imaging separates the transmitter and receiver locations. The transmitter and receiver geometry determines if the scattered signal is back scatter, forward scatter, or side scatter. The monostatic SAR image is backscatter. Therefore, depending on the transmitter/receiver collection geometry, the captured imagery may be quite different that that sensed at the monostatic SAR. This document presents imagery and image products formed from captured signals during the validation stage of the bistatic SAR research. Image quality and image characteristics are discussed first. Then image products such as two-color multi-view (2CMV) and coherent change detection (CCD) are presented.

76 FR 63316 - Prospective Grant of Exclusive License: Secreted Frizzled Related Protein-1 (sFRP-1) and...

Science.gov (United States)

2011-10-12

... function and decreased sFRP-1 protein expression, has been linked to a number of cancers, including gastric... permitted by law, will not be released under the Freedom of Information Act, 5 U.S.C. 552. [[Page 63317...

Semi-physical Simulation of the Airborne InSAR based on Rigorous Geometric Model and Real Navigation Data

International Nuclear Information System (INIS)

Changyong, Dou; Huadong, Guo; Chunming, Han; Yuquan, Liu; Xijuan, Yue; Yinghui, Zhao

2014-01-01

Raw signal simulation is a useful tool for the system design, mission planning, processing algorithm testing, and inversion algorithm design of Synthetic Aperture Radar (SAR). Due to the wide and high frequent variation of aircraft's trajectory and attitude, and the low accuracy of the Position and Orientation System (POS)'s recording data, it's difficult to quantitatively study the sensitivity of the key parameters, i.e., the baseline length and inclination, absolute phase and the orientation of the antennas etc., of the airborne Interferometric SAR (InSAR) system, resulting in challenges for its applications. Furthermore, the imprecise estimation of the installation offset between the Global Positioning System (GPS), Inertial Measurement Unit (IMU) and the InSAR antennas compounds the issue. An airborne interferometric SAR (InSAR) simulation based on the rigorous geometric model and real navigation data is proposed in this paper, providing a way for quantitatively studying the key parameters and for evaluating the effect from the parameters on the applications of airborne InSAR, as photogrammetric mapping, high-resolution Digital Elevation Model (DEM) generation, and surface deformation by Differential InSAR technology, etc. The simulation can also provide reference for the optimal design of the InSAR system and the improvement of InSAR data processing technologies such as motion compensation, imaging, image co-registration, and application parameter retrieval, etc

Integrated Shoreline Extraction Approach with Use of Rasat MS and SENTINEL-1A SAR Images

Science.gov (United States)

Demir, N.; Oy, S.; Erdem, F.; Şeker, D. Z.; Bayram, B.

2017-09-01

Shorelines are complex ecosystems and highly important socio-economic environments. They may change rapidly due to both natural and human-induced effects. Determination of movements along the shoreline and monitoring of the changes are essential for coastline management, modeling of sediment transportation and decision support systems. Remote sensing provides an opportunity to obtain rapid, up-to-date and reliable information for monitoring of shoreline. In this study, approximately 120 km of Antalya-Kemer shoreline which is under the threat of erosion, deposition, increasing of inhabitants and urbanization and touristic hotels, has been selected as the study area. In the study, RASAT pansharpened and SENTINEL-1A SAR images have been used to implement proposed shoreline extraction methods. The main motivation of this study is to combine the land/water body segmentation results of both RASAT MS and SENTINEL-1A SAR images to improve the quality of the results. The initial land/water body segmentation has been obtained using RASAT image by means of Random Forest classification method. This result has been used as training data set to define fuzzy parameters for shoreline extraction from SENTINEL-1A SAR image. Obtained results have been compared with the manually digitized shoreline. The accuracy assessment has been performed by calculating perpendicular distances between reference data and extracted shoreline by proposed method. As a result, the mean difference has been calculated around 1 pixel.

Discovery of a novel bottlenose dolphin coronavirus reveals a distinct species of marine mammal coronavirus in Gammacoronavirus.

Science.gov (United States)

Woo, Patrick C Y; Lau, Susanna K P; Lam, Carol S F; Tsang, Alan K L; Hui, Suk-Wai; Fan, Rachel Y Y; Martelli, Paolo; Yuen, Kwok-Yung

2014-01-01

While gammacoronaviruses mainly comprise infectious bronchitis virus (IBV) and its closely related bird coronaviruses (CoVs), the only mammalian gammacoronavirus was discovered from a white beluga whale (beluga whale CoV [BWCoV] SW1) in 2008. In this study, we discovered a novel gammacoronavirus from fecal samples from three Indo-Pacific bottlenose dolphins (Tursiops aduncus), which we named bottlenose dolphin CoV (BdCoV) HKU22. All the three BdCoV HKU22-positive samples were collected on the same date, suggesting a cluster of infection, with viral loads of 1 × 10(3) to 1 × 10(5) copies per ml. Clearance of virus was associated with a specific antibody response against the nucleocapsid of BdCoV HKU22. Complete genome sequencing and comparative genome analysis showed that BdCoV HKU22 and BWCoV SW1 have similar genome characteristics and structures. Their genome size is about 32,000 nucleotides, the largest among all CoVs, as a result of multiple unique open reading frames (NS5a, NS5b, NS5c, NS6, NS7, NS8, NS9, and NS10) between their membrane (M) and nucleocapsid (N) protein genes. Although comparative genome analysis showed that BdCoV HKU22 and BWCoV SW1 should belong to the same species, a major difference was observed in the proteins encoded by their spike (S) genes, which showed only 74.3 to 74.7% amino acid identities. The high ratios of the number of synonymous substitutions per synonymous site (Ks) to the number of nonsynonymous substitutions per nonsynonymous site (Ka) in multiple regions of the genome, especially the S gene (Ka/Ks ratio, 2.5), indicated that BdCoV HKU22 may be evolving rapidly, supporting a recent transmission event to the bottlenose dolphins. We propose a distinct species, Cetacean coronavirus, in Gammacoronavirus, to include BdCoV HKU22 and BWCoV SW1, whereas IBV and its closely related bird CoVs represent another species, Avian coronavirus, in Gammacoronavirus.

Crop Classification by Polarimetric SAR

DEFF Research Database (Denmark)

Skriver, Henning; Svendsen, Morten Thougaard; Nielsen, Flemming

1999-01-01

Polarimetric SAR-data of agricultural fields have been acquired by the Danish polarimetric L- and C-band SAR (EMISAR) during a number of missions at the Danish agricultural test site Foulum during 1995. The data are used to study the classification potential of polarimetric SAR data using...

B1-based SAR reconstruction using contrast source inversion-electric properties tomography (CSI-EPT)

NARCIS (Netherlands)

Balidemaj, Edmond; van den Berg, Cornelis A T; van Lier, A.L.H.M.W.; Nederveen, Aart J; Stalpers, Lukas J A; Crezee, Hans; Remis, Rob F

Specific absorption rate (SAR) assessment is essential for safety purposes during MR acquisition. Online SAR assessment is not trivial and requires, in addition, knowledge of the electric tissue properties and the electric fields in the human anatomy. In this study, the potential of the recently

B1-based SAR reconstruction using contrast source inversion–electric properties tomography (CSI-EPT)

NARCIS (Netherlands)

Balidemaj, E.; van den Berg, CAT; van Lier, ALHMW; Nederveen, AJ; Stalpers, LJA; Crezee, H; Remis, R.F.

2016-01-01

Specific absorption rate (SAR) assessment is essential for safety purposes during MR acquisition. Online SAR assessment is not trivial and requires, in addition, knowledge of the electric tissue properties and the electric fields in the human anatomy. In this study, the potential of the recently

Use of SPOT and ERS-1 SAR data to study the tectonic and climatic history of arid regions

Science.gov (United States)

Farr, Tom G.; Peltzer, Gilles F.

1993-01-01

In order to separate the effects of the different tectonic and climatic processes on the shapes of desert piedmonts, a modified conic equation was fitted to digital topographic data for individual alluvial fans in Death Valley (California, U.S.). The topographic data were obtained from a SPOT panchromatic stereo pair and from the airborne interferometric SAR (Synthetic Aperture Radar) (TOPSAR). The conic fit allows parameters for the epex position, slope, and radial curvature to be compared with unit age, uplift rate, and climatic conditions. Preliminary results indicate that slope flattens with age and radial curvature is concave up, but decreases with age. Work is continuing on correlation of fit residuals and apex position with fan unit age. This information will help in the determination of tectonic uplift rates and the climatic history of the western U.S. ERS-1 SAR images were used to study an area of western China where a large strike slip fault crosses a series of alluvial fans and stream valleys. Previous analysis of SPOT panchromatic images of the area shows that offsets fans and streams can be recognized. Measurement of the rate of motion of this fault will help in the overall model of deformation of the Asian tectonic plate in response to the collision of the Indian plate.

Polarimetric scattering and SAR information retrieval

CERN Document Server

Jin, Ya-Qiu

2013-01-01

Taking an innovative look at Synthetic Aperture Radar (SAR), this practical reference fully covers new developments in SAR and its various methodologies and enables readers to interpret SAR imagery An essential reference on polarimetric Synthetic Aperture Radar (SAR), this book uses scattering theory and radiative transfer theory as a basis for its treatment of topics. It is organized to include theoretical scattering models and SAR data analysis techniques, and presents cutting-edge research on theoretical modelling of terrain surface. The book includes quantitative app

Mesodynamics in the SARS nucleocapsid measured by NMR field cycling

Energy Technology Data Exchange (ETDEWEB)

Clarkson, Michael W.; Lei Ming; Eisenmesser, Elan Z.; Labeikovsky, Wladimir [MS009 Brandeis University, Department of Biochemistry and Howard Hughes Medical Institute (United States); Redfield, Alfred [MS009 Brandeis University, Department of Biochemistry (United States)], E-mail: redfield@brandeis.edu; Kern, Dorothee [MS009 Brandeis University, Department of Biochemistry and Howard Hughes Medical Institute (United States)], E-mail: dkern@brandeis.edu

2009-09-15

Protein motions on all timescales faster than molecular tumbling are encoded in the spectral density. The dissection of complex protein dynamics is typically performed using relaxation rates determined at high and ultra-high field. Here we expand this range of the spectral density to low fields through field cycling using the nucleocapsid protein of the SARS coronavirus as a model system. The field-cycling approach enables site-specific measurements of R{sub 1} at low fields with the sensitivity and resolution of a high-field magnet. These data, together with high-field relaxation and heteronuclear NOE, provide evidence for correlated rigid-body motions of the entire {beta}-hairpin, and corresponding motions of adjacent loops with a time constant of 0.8 ns (mesodynamics). MD simulations substantiate these findings and provide direct verification of the time scale and collective nature of these motions.

An offset cancellation technique in a switched-capacitor comparator for SAR ADCs

International Nuclear Information System (INIS)

Tong Xingyuan; Zhu Zhangming; Yang Yintang

2012-01-01

An offset cancellation technique for a SAR (successive approximation register) ADC switched-capacitor comparator is described. The comparator is designed with a pre-amplifying and regenerative latching structure and realized in 0.18 μm CMOS. With the first stage preamplifier offset cancellation and low offset regenerative latching approach, the equivalent offset of the comparator is reduced to < 0.55 mV. By using the pre-amplifying and regenerative latching comparison mode the comparator exhibits low power dissipation. Under a 1.8 V power supply, with a 200 kS/s ADC sampling rate and 3 MHz clock frequency, a 13-bit comparison resolution is reached and less than 0.09 mW power dissipation is consumed. The superiority of this comparator is discussed and proved by the post-simulation and application to a 10 bit 200 kS/s touch screen SAR A/D converter. (semiconductor integrated circuits)

Urban remote sensing in areas of conflict: TerraSAR-X and Sentinel-1 change detection in the Middle East

Science.gov (United States)

Tapete, Deodato; Cigna, Francesca

2016-08-01

Timely availability of images of suitable spatial resolution, temporal frequency and coverage is currently one of the major technical constraints on the application of satellite SAR remote sensing for the conservation of heritage assets in urban environments that are impacted by human-induced transformation. TerraSAR-X and Sentinel-1A, in this regard, are two different models of SAR data provision: very high resolution on-demand imagery with end user-selected acquisition parameters, on one side, and freely accessible GIS-ready products with intended regular temporal coverage, on the other. What this means for change detection analyses in urban areas is demonstrated in this paper via the experiment over Homs, the third largest city of Syria with an history of settlement since 2300 BCE, where the impacts of the recent civil war combine with pre- and post-conflict urban transformation . The potential performance of Sentinel-1A StripMap scenes acquired in an emergency context is simulated via the matching StripMap beam mode offered by TerraSAR-X. Benefits and limitations of the different radar frequency band, spatial resolution and single/multi-channel polarization are discussed, as a proof-of-concept of regular monitoring currently achievable with space-borne SAR in historic urban settings. Urban transformation observed across Homs in 2009, 2014 and 2015 shows the impact of the Syrian conflict on the cityscape and proves that operator-driven interpretation is required to understand the complexity of multiple and overlapping urban changes.

Design and realization of an active SAR calibrator for TerraSAR-X

Science.gov (United States)

Dummer, Georg; Lenz, Rainer; Lutz, Benjamin; Kühl, Markus; Müller-Glaser, Klaus D.; Wiesbeck, Werner

2005-10-01

TerraSAR-X is a new earth observing satellite which will be launched in spring 2006. It carries a high resolution X-band SAR sensor. For high image data quality, accurate ground calibration targets are necessary. This paper describes a novel system concept for an active and highly integrated, digitally controlled SAR system calibrator. A total of 16 active transponder and receiver systems and 17 receiver only systems will be fabricated for a calibration campaign. The calibration units serve for absolute radiometric calibration of the SAR image data. Additionally, they are equipped with an extra receiver path for two dimensional satellite antenna pattern recognition. The calibrator is controlled by a dedicated digital Electronic Control Unit (ECU). The different voltages needed by the calibrator and the ECU are provided by the third main unit called Power Management Unit (PMU).

Solution structure of GSP13 from Bacillus subtilis exhibits an S1 domain related to cold shock proteins

International Nuclear Information System (INIS)

Yu Wenyu; Hu Jicheng; Yu Bingke; Xia Wei; Jin Changwen; Xia Bin

2009-01-01

GSP13 encoded by gene yugI is a σ B -dependent general stress protein in Bacillus subtilis, which can be induced by heat shock, salt stress, ethanol stress, glucose starvation, oxidative stress and cold shock. Here we report the solution structure of GSP13 and it is the first structure of S1 domain containing protein in Bacillus subtilis. The structure of GSP13 mainly consists of a typical S1 domain along with a C-terminal 50-residue flexible tail, different from the other known S1 domain containing proteins. Comparison with other S1 domain structures reveals that GSP13 has a conserved RNA binding surface, and it may function similarly to cold shock proteins in response to cold stress

A role for Sar1 and ARF1 GTPases during Golgi biogenesis in the protozoan parasite Trypanosoma brucei

Science.gov (United States)

Yavuz, Sevil; Warren, Graham

2017-01-01

A single Golgi stack is duplicated and partitioned into two daughter cells during the cell cycle of the protozoan parasite Trypanosoma brucei. The source of components required to generate the new Golgi and the mechanism by which it forms are poorly understood. Using photoactivatable GFP, we show that the existing Golgi supplies components directly to the newly forming Golgi in both intact and semipermeabilized cells. The movement of a putative glycosyltransferase, GntB, requires the Sar1 and ARF1 GTPases in intact cells. In addition, we show that transfer of GntB from the existing Golgi to the new Golgi can be recapitulated in semipermeabilized cells and is sensitive to the GTP analogue GTPγS. We suggest that the existing Golgi is a key source of components required to form the new Golgi and that this process is regulated by small GTPases. PMID:28495798

SAR compliance assessment of PMR 446 and FRS walkie-talkies.

Science.gov (United States)

Vermeeren, Günter; Joseph, Wout; Martens, Luc

2015-10-01

The vast amount of studies on radiofrequency dosimetry deal with exposure due to mobile devices and base station antennas for cellular communication systems. This study investigates compliance of walkie-talkies to exposure guidelines established by the International Commission on Non-Ionizing Radiation Protection and the Federal Communications Committee. The generic walkie-talkie consisted of a helical antenna and a ground plane and was derived by reverse engineering of a commercial walkie-talkie. Measured and simulated values of antenna characteristics and electromagnetic near fields of the generic walkie-talkie were within 2% and 8%, respectively. We also validated normalized electromagnetic near fields of the generic walkie-talkie against a commercial device and observed a very good agreement (deviation based on magnetic near field. Finally, we found that SAR of commercial devices is within current SAR limits for general public exposure for a worst-case duty cycle of 100%, that is, about 3 times and 6 times lower than the limit on the 1 g SAR (1.6 W/kg) and 10 g SAR (2 W/kg), respectively. But, an effective radiated power as specified by the Private Mobile Radio at 446 MHz (PMR 446) radio standard can cause localized SAR exceeding SAR limits for 1 g of tissue. © 2015 Wiley Periodicals, Inc.

SEGMENTATION OF POLARIMETRIC SAR IMAGES USIG WAVELET TRANSFORMATION AND TEXTURE FEATURES

Directory of Open Access Journals (Sweden)

A. Rezaeian

2015-12-01

Full Text Available Polarimetric Synthetic Aperture Radar (PolSAR sensors can collect useful observations from earth’s surfaces and phenomena for various remote sensing applications, such as land cover mapping, change and target detection. These data can be acquired without the limitations of weather conditions, sun illumination and dust particles. As result, SAR images, and in particular Polarimetric SAR (PolSAR are powerful tools for various environmental applications. Unlike the optical images, SAR images suffer from the unavoidable speckle, which causes the segmentation of this data difficult. In this paper, we use the wavelet transformation for segmentation of PolSAR images. Our proposed method is based on the multi-resolution analysis of texture features is based on wavelet transformation. Here, we use the information of gray level value and the information of texture. First, we produce coherency or covariance matrices and then generate span image from them. In the next step of proposed method is texture feature extraction from sub-bands is generated from discrete wavelet transform (DWT. Finally, PolSAR image are segmented using clustering methods as fuzzy c-means (FCM and k-means clustering. We have applied the proposed methodology to full polarimetric SAR images acquired by the Uninhabited Aerial Vehicle Synthetic Aperture Radar (UAVSAR L-band system, during July, in 2012 over an agricultural area in Winnipeg, Canada.

The behavioral impacts of SARS and its implication for societal preparedness for other emerging infections

Directory of Open Access Journals (Sweden)

Kathleen Pik-san Kwok

2008-07-01

Full Text Available Introduction: This study examined public attitudes toward Severe Acute Respiratory Syndrome (SARS in Hong Kong three months after the peak of the 2003 outbreak in order to shed light on SARS-related complaints received by the Equal Opportunities Commission of Hong Kong. Methods: A cross-sectional telephone survey was conducted three months after the SARS outbreak of 1,023 randomly selected Chinese-speaking residents in Hong Kong. Results: Most of the respondents (72.2% reported worry about contracting SARS. They attributed their anxiety to the perceived danger of the disease, the government’s unsatisfactory style of crisis management, and inconsistent health information dissemination. The majority of respondents endorsed up to 3 avoidant (67.8% and 3 imposing (72.7% attitudes toward individuals and/or situations considered to be at risk of spreading SARS. Logistic Regression analyses indicated that the odds for avoidant and imposing attitudes increased significantly for those who were middle aged (35-54, employed full-time or part-time, and worried over contracting SARS. Conclusions: Public attitudes that endorsed avoidant and imposing behaviors were common during the outbreak of SARS. While essential for preventive health practices, they might bring about workplace conflicts, stigma, and other negative interpersonal experiences. These problems may complicate public health efforts to control the epidemic. They may also suggest ways in which societal preparedness for future emerging infections can be improved.

Mapping and monitoring renewable resources with space SAR

Science.gov (United States)

Ulaby, F. T.; Brisco, B.; Dobson, M. C.; Moezzi, S.

1983-01-01

The SEASAT-A SAR and SIR-A imagery was examined to evaluate the quality and type of information that can be extracted and used to monitor renewable resources on Earth. Two tasks were carried out: (1) a land cover classification study which utilized two sets of imagery acquired by the SEASAT-A SAR, one set by SIR-A, and one LANDSAT set (4 bands); and (2) a change detection to examine differences between pairs of SEASAT-A SAR images and relates them to hydrologic and/or agronomic variations in the scene.

Performance of UASB reactors in two stages under different HRT and OLR treating residual waters of swine farming Desempenho de reatores UASB em dois estágios sob diferentes TDH e COV tratando águas residuárias de suinocultura

Directory of Open Access Journals (Sweden)

Estevão Urbinati

2013-04-01

Full Text Available In this study it was evaluated the effects of hydraulic retention time (HRT and Organic Loading Rate (OLR on the performance of UASB (Upflow Anaerobic Sludge Blanket reactors in two stages treating residual waters of swine farming. The system consisted of two UASB reactors in pilot scale, installed in series, with volumes of 908 and 188 L, for the first and second stages (R1 and R2, respectively. The HRT applied in the system of anaerobic treatment in two stages (R1 + R2 was of 19.3, 29.0 and 57.9 h. The OLR applied in the R1 ranged from 5.5 to 40.1 kg CODtotal (m³ d-1. The average removal efficiencies of chemical oxygen demand (COD and total suspended solids (TSS ranged, respectively, from 66.3 to 88.2% and 62.5 to 89.3% in the R1, and from 85.5 to 95.5% and 76.4 to 96.1% in the system (R1 + R2. The volumetric production of methane in the system (R1 + R2 ranged from 0.295 to 0.721 m³CH4 (m³ reactor d-1. It was found that the OLR applied were not limiting to obtain high efficiencies of CODtotal and TSS removal and methane production. The inclusion of the UASB reactor in the second stage contributed to increase the efficiencies of CODtotal and TSS removal, especially, when the treatment system was submitted to the lowest HRT and the highest OLR.Neste trabalho, avaliou-se o efeito do tempo de detenção hidráulica (TDH e da carga orgânica volumétrica (COV no desempenho de reatores UASB (Upflow Anaerobic Sludge Blanket, em dois estágios, tratando águas residuárias de suinocultura. O sistema foi constituído por dois reatores UASB em escala-piloto, instalados em série, com volumes de 908 e 188 L, para o primeiro e segundo estágios (R1 e R2, respectivamente. Os TDH, aplicados no sistema de tratamento anaeróbio, em dois estágios (R1 + R2, foram de 19,3; 29,0 e 57,9 h. As COVs aplicadas no R1 variaram de 5,5 a 40,1 kg DQOtotal (m³ d-1. As eficiências médias de remoção de demanda química de oxigênio total (DQOtotal e s

Automatic Detection and Positioning of Ground Control Points Using TerraSAR-X Multiaspect Acquisitions

Science.gov (United States)

Montazeri, Sina; Gisinger, Christoph; Eineder, Michael; Zhu, Xiao xiang

2018-05-01

Geodetic stereo Synthetic Aperture Radar (SAR) is capable of absolute three-dimensional localization of natural Persistent Scatterer (PS)s which allows for Ground Control Point (GCP) generation using only SAR data. The prerequisite for the method to achieve high precision results is the correct detection of common scatterers in SAR images acquired from different viewing geometries. In this contribution, we describe three strategies for automatic detection of identical targets in SAR images of urban areas taken from different orbit tracks. Moreover, a complete work-flow for automatic generation of large number of GCPs using SAR data is presented and its applicability is shown by exploiting TerraSAR-X (TS-X) high resolution spotlight images over the city of Oulu, Finland and a test site in Berlin, Germany.

MAPPING THE EXTENT AND MAGNITUDE OF SEVER FLOODING INDUCED BY HURRICANE IRMA WITH MULTI-TEMPORAL SENTINEL-1 SAR AND INSAR OBSERVATIONS

Directory of Open Access Journals (Sweden)

B. Zhang

2018-04-01

Full Text Available During Hurricane Irma’s passage over Florida in September 2017, many sections of the state experienced heavy rain and sequent flooding. In order to drain water out of potential flooding zones and assess property damage, it is important to map the extent and magnitude of the flooded areas at various stages of the storm. We use Synthetic Aperture Radar (SAR and Interferometric SAR (InSAR observations, acquired by Sentinel-1 before, during and after the hurricane passage, which enable us to evaluate surface condition during different stages of the hurricane. This study uses multi-temporal images acquired under dry condition before the hurricane to constrain the background backscattering signature. Flooded areas are detected when the backscattering during the hurricane is statistically significantly different from the average dry conditions. The detected changes can be either an increase or decrease of the backscattering, which depends on the scattering characteristics of the surface. In addition, water level change information in Palmdale, South Florida is extracted from an interferogram with the aid of a local water gauge as the reference. The results of our flooding analysis revealed that the majority of the study area in South Florida was flooded during Hurricane Irma.

Mapping mountain meadow with high resolution and polarimetric SAR data

International Nuclear Information System (INIS)

Tian, Bangsen; Li, Zhen; Xu, Juan; Fu, Sitao; Liu, Jiuli

2014-01-01

This paper presents a method to map the large grassland in the eastern margin of the Tibetan Plateau with the high resolution polarimetric SAR (PolSAR) imagery. When PolSAR imagery is used for land cover classification, the brightness of a SAR image is affected by topography due to varying projection between ground and image coordinates. The objective of this paper is twofold: (1) we first extend the theory of SAR terrain correction to the polarimetric case, to utilize the entire available polarimetric signature, where correction is performed explicitly based on a matrix format like covariance matrix. (2) Next, the orthoectified PolSAR is applied to classify mountain meadow and investigate the potential of PolSAR in mapping grassland. In this paper, the gamma naught radiometric correction estimates the local illuminated area at each grid point in the radar geometry. Then, each element of the coherency matrix is divided by the local area to produce a polarimetric product. Secondly, the impact of radiometric correction upon classification accuracy is investigated. A supervised classification is performed on the orthorectified Radarsat-2 PolSAR to map the spatial distribution of meadow and evaluate monitoring capabilities of mountain meadow

Global Rapid Flood Mapping System with Spaceborne SAR Data

Science.gov (United States)

Yun, S. H.; Owen, S. E.; Hua, H.; Agram, P. S.; Fattahi, H.; Liang, C.; Manipon, G.; Fielding, E. J.; Rosen, P. A.; Webb, F.; Simons, M.

2017-12-01

As part of the Advanced Rapid Imaging and Analysis (ARIA) project for Natural Hazards, at NASA's Jet Propulsion Laboratory and California Institute of Technology, we have developed an automated system that produces derived products for flood extent map generation using spaceborne SAR data. The system takes user's input of area of interest polygons and time window for SAR data search (pre- and post-event). Then the system automatically searches and downloads SAR data, processes them to produce coregistered SAR image pairs, and generates log amplitude ratio images from each pair. Currently the system is automated to support SAR data from the European Space Agency's Sentinel-1A/B satellites. We have used the system to produce flood extent maps from Sentinel-1 SAR data for the May 2017 Sri Lanka floods, which killed more than 200 people and displaced about 600,000 people. Our flood extent maps were delivered to the Red Cross to support response efforts. Earlier we also responded to the historic August 2016 Louisiana floods in the United States, which claimed 13 people's lives and caused over $10 billion property damage. For this event, we made synchronized observations from space, air, and ground in close collaboration with USGS and NOAA. The USGS field crews acquired ground observation data, and NOAA acquired high-resolution airborne optical imagery within the time window of +/-2 hours of the SAR data acquisition by JAXA's ALOS-2 satellite. The USGS coordinates of flood water boundaries were used to calibrate our flood extent map derived from the ALOS-2 SAR data, and the map was delivered to FEMA for estimating the number of households affected. Based on the lessons learned from this response effort, we customized the ARIA system automation for rapid flood mapping and developed a mobile friendly web app that can easily be used in the field for data collection. Rapid automatic generation of SAR-based global flood maps calibrated with independent observations from

Leads Detection Using Mixture Statistical Distribution Based CRF Algorithm from Sentinel-1 Dual Polarization SAR Imagery

Science.gov (United States)

Zhang, Yu; Li, Fei; Zhang, Shengkai; Zhu, Tingting

2017-04-01

Synthetic Aperture Radar (SAR) is significantly important for polar remote sensing since it can provide continuous observations in all days and all weather. SAR can be used for extracting the surface roughness information characterized by the variance of dielectric properties and different polarization channels, which make it possible to observe different ice types and surface structure for deformation analysis. In November, 2016, Chinese National Antarctic Research Expedition (CHINARE) 33rd cruise has set sails in sea ice zone in Antarctic. Accurate leads spatial distribution in sea ice zone for routine planning of ship navigation is essential. In this study, the semantic relationship between leads and sea ice categories has been described by the Conditional Random Fields (CRF) model, and leads characteristics have been modeled by statistical distributions in SAR imagery. In the proposed algorithm, a mixture statistical distribution based CRF is developed by considering the contexture information and the statistical characteristics of sea ice for improving leads detection in Sentinel-1A dual polarization SAR imagery. The unary potential and pairwise potential in CRF model is constructed by integrating the posteriori probability estimated from statistical distributions. For mixture statistical distribution parameter estimation, Method of Logarithmic Cumulants (MoLC) is exploited for single statistical distribution parameters estimation. The iteration based Expectation Maximal (EM) algorithm is investigated to calculate the parameters in mixture statistical distribution based CRF model. In the posteriori probability inference, graph-cut energy minimization method is adopted in the initial leads detection. The post-processing procedures including aspect ratio constrain and spatial smoothing approaches are utilized to improve the visual result. The proposed method is validated on Sentinel-1A SAR C-band Extra Wide Swath (EW) Ground Range Detected (GRD) imagery with a

Identification of nucleosome assembly protein 1 (NAP1) as an interacting partner of plant ribosomal protein S6 (RPS6) and a positive regulator of rDNA transcription

Energy Technology Data Exchange (ETDEWEB)

Son, Ora [Department of Biological Science, Sookmyung Women' s University, Seoul 140-742 (Korea, Republic of); Kim, Sunghan [Department of Biological Science, Sookmyung Women' s University, Seoul 140-742 (Korea, Republic of); Department of Plant Science, Plant Genomics and Breeding Institute, Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul 151-921 (Korea, Republic of); Shin, Yun-jeong [Department of Biological Science, Sookmyung Women' s University, Seoul 140-742 (Korea, Republic of); Kim, Woo-Young [College of Pharmacy, Sookmyung Women' s University, Seoul 140-742 (Korea, Republic of); Koh, Hee-Jong, E-mail: heejkoh@snu.ac.kr [Department of Plant Science, Plant Genomics and Breeding Institute, Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul 151-921 (Korea, Republic of); Cheon, Choong-Ill, E-mail: ccheon@sookmyung.ac.kr [Department of Biological Science, Sookmyung Women' s University, Seoul 140-742 (Korea, Republic of)

2015-09-18

The ribosomal protein S6 (RPS6) is a downstream component of the signaling mediated by the target of rapamycin (TOR) kinase that acts as a central regulator of the key metabolic processes, such as protein translation and ribosome biogenesis, in response to various environmental cues. In our previous study, we identified a novel role of plant RPS6, which negatively regulates rDNA transcription, forming a complex with a plant-specific histone deacetylase, AtHD2B. Here we report that the Arabidopsis RPS6 interacts additionally with a histone chaperone, nucleosome assembly protein 1(AtNAP1;1). The interaction does not appear to preclude the association of RPS6 with AtHD2B, as the AtNAP1 was also able to interact with AtHD2B as well as with an RPS6-AtHD2B fusion protein in the BiFC assay and pulldown experiment. Similar to a positive effect of the ribosomal S6 kinase 1 (AtS6K1) on rDNA transcription observed in this study, overexpression or down regulation of the AtNAP1;1 resulted in concomitant increase and decrease, respectively, in rDNA transcription suggesting a positive regulatory role played by AtNAP1 in plant rDNA transcription, possibly through derepression of the negative effect of the RPS6-AtHD2B complex. - Highlights: • Nucleosome assembly protein 1 (AtNAP1) interacts with RPS6 as well as with AtHD2B. • rDNA transcription is regulated S6K1. • Overexpression or down regulation of AtNAP1 results in concomitant increase or decrease in rDNA transcription.

Generation and characterization of polyclonal antibodies specific to N-terminal extension of p85 isoform of ribosomal protein S6 kinase 1 (p85 S6K1

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Savinska L. O.

2015-08-01

Full Text Available Aim. Generation of polyclonal antibodies specific to the ribosomal protein S6 kinase isoform – p85S6K1 and directed to the N-terminal (1–23 aa extension of p85S6K1. Methods. Animal immunization with synthetic (1–23 aa peptide, ELISA, Western blot, Immunoprecipitation, immunofluorescent analysis. Results. Polyclonal antibodies have been generated, which specifically recognize only p85 but not p70 isoform of S6K1 in western blot, immunoprecipitation and immunofluorescence analysis. Conclusions. The obtained antibodies can be recommended for studies on the p85S6K1 and other S6K1 isoforms possessing the N-terminal extension – the identification of binding protein partners, analysis of subcellular localization under different physiological conditions, elucidation of the signal transduction pathways involving different S6K1 isoforms.

Crystal Structure of Feline Infectious Peritonitis Virus Main Protease in Complex with Synergetic Dual Inhibitors.

Science.gov (United States)

Wang, Fenghua; Chen, Cheng; Liu, Xuemeng; Yang, Kailin; Xu, Xiaoling; Yang, Haitao

2016-02-15

Coronaviruses (CoVs) can cause highly prevalent diseases in humans and animals. Feline infectious peritonitis virus (FIPV) belongs to the genus Alphacoronavirus, resulting in a lethal systemic granulomatous disease called feline infectious peritonitis (FIP), which is one of the most important fatal infectious diseases of cats worldwide. No specific vaccines or drugs have been approved to treat FIP. CoV main proteases (M(pro)s) play a pivotal role in viral transcription and replication, making them an ideal target for drug development. Here, we report the crystal structure of FIPV M(pro) in complex with dual inhibitors, a zinc ion and a Michael acceptor. The complex structure elaborates a unique mechanism of two distinct inhibitors synergizing to inactivate the protease, providing a structural basis to design novel antivirals and suggesting the potential to take advantage of zinc as an adjunct therapy against CoV-associated diseases. Coronaviruses (CoVs) have the largest genome size among all RNA viruses. CoV infection causes various diseases in humans and animals, including severe acute respiratory syndrome (SARS) and Middle East respiratory syndrome (MERS). No approved specific drugs or vaccinations are available to treat their infections. Here, we report a novel dual inhibition mechanism targeting CoV main protease (M(pro)) from feline infectious peritonitis virus (FIPV), which leads to lethal systemic granulomatous disease in cats. M(pro), conserved across all CoV genomes, is essential for viral replication and transcription. We demonstrated that zinc ion and a Michael acceptor-based peptidomimetic inhibitor synergistically inactivate FIPV M(pro). We also solved the structure of FIPV M(pro) complexed with two inhibitors, delineating the structural view of a dual inhibition mechanism. Our study provides new insight into the pharmaceutical strategy against CoV M(pro) through using zinc as an adjuvant therapy to enhance the efficacy of an irreversible

Sphingosine-1-phosphate (S1P) displays sustained S1P1 receptor agonism and signaling through S1P lyase-dependent receptor recycling.

Science.gov (United States)

Gatfield, John; Monnier, Lucile; Studer, Rolf; Bolli, Martin H; Steiner, Beat; Nayler, Oliver

2014-07-01

The sphingosine-1-phosphate (S1P) type 1 receptor (S1P1R) is a novel therapeutic target in lymphocyte-mediated autoimmune diseases. S1P1 receptor desensitization caused by synthetic S1P1 receptor agonists prevents T-lymphocyte egress from secondary lymphoid organs into the circulation. The selective S1P1 receptor agonist ponesimod, which is in development for the treatment of autoimmune diseases, efficiently reduces peripheral lymphocyte counts and displays efficacy in animal models of autoimmune disease. Using ponesimod and the natural ligand S1P, we investigated the molecular mechanisms leading to different signaling, desensitization and trafficking behavior of S1P1 receptors. In recombinant S1P1 receptor-expressing cells, ponesimod and S1P triggered Gαi protein-mediated signaling and β-arrestin recruitment with comparable potency and efficiency, but only ponesimod efficiently induced intracellular receptor accumulation. In human umbilical vein endothelial cells (HUVEC), ponesimod and S1P triggered translocation of the endogenous S1P1 receptor to the Golgi compartment. However, only ponesimod treatment caused efficient surface receptor depletion, receptor accumulation in the Golgi and degradation. Impedance measurements in HUVEC showed that ponesimod induced only short-lived Gαi protein-mediated signaling followed by resistance to further stimulation, whereas S1P induced sustained Gαi protein-mediated signaling without desensitization. Inhibition of S1P lyase activity in HUVEC rendered S1P an efficient S1P1 receptor internalizing compound and abrogated S1P-mediated sustained signaling. This suggests that S1P lyase - by facilitating S1P1 receptor recycling - is essential for S1P-mediated sustained signaling, and that synthetic agonists are functional antagonists because they are not S1P lyase substrates. Copyright © 2014 Elsevier Inc. All rights reserved.

InSAR deformation monitoring of high risk landslides

Science.gov (United States)

Singhroy, V.; Li, J.

2013-05-01

During the past year there were at least twenty five media reports of landslides and seismic activities some fatal, occurring in various areas in Canada. These high risk geohazards sites requires high resolution monitoring both spatially and temporally for mitigation purposes, since they are near populated areas and energy, transportation and communication corridors. High resolution air photos, lidar and satellite images are quite common in areas where the landslides can be fatal. Radar interferometry (InSAR) techniques using images from several radar satellites are increasingly being used in slope stability assessment. This presentation provides examples of using high-resolution (1-3m) frequent revisits InSAR techniques from RADARSAT 2 and TerraSAR X to monitor several types of high-risk landslides affecting transportation and energy corridors and populated areas. We have analyses over 200 high resolution InSAR images over a three year period on geologically different landslides. The high-resolution InSAR images are effective in characterizing differential motion within these low velocity landslides. The low velocity landslides become high risk during the active wet spring periods. The wet soils are poor coherent targets and corner reflectors provide an effective means of InSAR monitoring the slope activities.

Protein-protein interactions within late pre-40S ribosomes.

Directory of Open Access Journals (Sweden)

Melody G Campbell

2011-01-01

Full Text Available Ribosome assembly in eukaryotic organisms requires more than 200 assembly factors to facilitate and coordinate rRNA transcription, processing, and folding with the binding of the ribosomal proteins. Many of these assembly factors bind and dissociate at defined times giving rise to discrete assembly intermediates, some of which have been partially characterized with regards to their protein and RNA composition. Here, we have analyzed the protein-protein interactions between the seven assembly factors bound to late cytoplasmic pre-40S ribosomes using recombinant proteins in binding assays. Our data show that these factors form two modules: one comprising Enp1 and the export adaptor Ltv1 near the beak structure, and the second comprising the kinase Rio2, the nuclease Nob1, and a regulatory RNA binding protein Dim2/Pno1 on the front of the head. The GTPase-like Tsr1 and the universally conserved methylase Dim1 are also peripherally connected to this second module. Additionally, in an effort to further define the locations for these essential proteins, we have analyzed the interactions between these assembly factors and six ribosomal proteins: Rps0, Rps3, Rps5, Rps14, Rps15 and Rps29. Together, these results and previous RNA-protein crosslinking data allow us to propose a model for the binding sites of these seven assembly factors. Furthermore, our data show that the essential kinase Rio2 is located at the center of the pre-ribosomal particle and interacts, directly or indirectly, with every other assembly factor, as well as three ribosomal proteins required for cytoplasmic 40S maturation. These data suggest that Rio2 could play a central role in regulating cytoplasmic maturation steps.

Cytoplasmic tail of coronavirus spike protein has intracellular

Indian Academy of Sciences (India)

https://www.ias.ac.in/article/fulltext/jbsc/042/02/0231-0244. Keywords. Coronavirus spike protein trafficking; cytoplasmic tail signal; endoplasmic reticulum–Golgi intermediate complex; lysosome. Abstract. Intracellular trafficking and localization studies of spike protein from SARS and OC43 showed that SARS spikeprotein is ...

Longitudinal study of age-specific pattern of coronavirus infection in Lyle's flying fox (Pteropus lylei) in Thailand.

Science.gov (United States)

Wacharapluesadee, Supaporn; Duengkae, Prateep; Chaiyes, Aingorn; Kaewpom, Thongchai; Rodpan, Apaporn; Yingsakmongkon, Sangchai; Petcharat, Sininat; Phengsakul, Patcharakiti; Maneeorn, Pattarapol; Hemachudha, Thiravat

2018-02-20

Bats are natural reservoirs for several highly pathogenic and novel viruses including coronaviruses (CoVs) (mainly Alphacoronavirus and Betacoronavirus). Lyle's flying fox (Pteropus lylei)'s roosts and foraging sites are usually in the proximity to humans and animals. Knowledge about age-specific pattern of CoV infection in P. lylei, prevalence, and viral shedding at roosts and foraging sites may have an impact on infection-age-structure model to control CoV outbreak. P. lylei bats were captured monthly during January-December 2012 for detection of CoV at three areas in Chonburi province; two human dwellings, S1 and S2, where few fruit trees were located with an open pig farm, 0.6 km and 5.5 km away from the bat roost, S3. Nested RT-PCR of RNA-dependent RNA polymerase (RdRp) gene from rectal swabs was used for CoV detection. The strain of CoV was confirmed by sequencing and phylogenetic analysis. CoV infection was found in both juveniles and adult bats between May and October (January, in adults only and April, in juveniles only). Of total rectal swab positives (68/367, 18.5%), ratio was higher in bats captured at S1 (11/44, 25.0%) and S2 (35/99, 35.4%) foraging sites than at roost (S3) (22/224, 9.8%). Juveniles (forearm length ≤ 136 mm) were found with more CoV infection than adults at all three sites; S1 (9/24, 37.5% vs 2/20, 10%), S2 (22/49, 44.9% vs 13/50, 26.0%), and S3 (10/30, 33.3% vs 12/194, 6.2%). The average BCI of CoV infected bats was significantly lower than uninfected bats. No gender difference related to infection was found at the sites. Phylogenetic analysis of conserved RdRp gene revealed that the detected CoVs belonged to group D betacoronavirus (n = 64) and alphacoronavirus (n = 4). The fact that CoV infection and shedding was found in more juvenile than adult bats may suggest transmission from mother during peripartum period. Whether viral reactivation during parturition period or stress is responsible in maintaining

Monitoring of viable airborne SARS virus in ambient air

Science.gov (United States)

Agranovski, Igor E.; Safatov, Alexander S.; Pyankov, Oleg V.; Sergeev, Alexander N.; Agafonov, Alexander P.; Ignatiev, Georgy M.; Ryabchikova, Elena I.; Borodulin, Alexander I.; Sergeev, Artemii A.; Doerr, Hans W.; Rabenau, Holger F.; Agranovski, Victoria

Due to recent SARS related issues (Science 300 (5624) 1394; Nature 423 (2003) 240; Science 300 (5627) 1966), the development of reliable airborne virus monitoring procedures has become galvanized by an exceptional sense of urgency and is presently in a high demand (In: Cox, C.S., Wathers, C.M. (Eds.), Bioaerosols Handbook, Lewis Publishers, Boca Raton, FL, 1995, pp. 247-267). Based on engineering control method (Aerosol Science and Technology 31 (1999) 249; 35 (2001) 852), which was previously applied to the removal of particles from gas carriers, a new personal bioaerosol sampler has been developed. Contaminated air is bubbled through porous medium submerged into liquid and subsequently split into multitude of very small bubbles. The particulates are scavenged by these bubbles, and, thus, effectively removed. The current study explores its feasibility for monitoring of viable airborne SARS virus. It was found that the natural decay of such virus in the collection fluid was around 0.75 and 1.76 lg during 2 and 4 h of continuous operation, respectively. Theoretical microbial recovery rates of higher than 55 and 19% were calculated for 1 and 2 h of operation, respectively. Thus, the new sampling method of direct non-violent collection of viable airborne SARS virus into the appropriate liquid environment was found suitable for monitoring of such stress sensitive virus.

An Adaptive Ship Detection Algorithm for Hrws SAR Images Under Complex Background: Application to SENTINEL1A Data

Science.gov (United States)

He, G.; Xia, Z.; Chen, H.; Li, K.; Zhao, Z.; Guo, Y.; Feng, P.

2018-04-01

Real-time ship detection using synthetic aperture radar (SAR) plays a vital role in disaster emergency and marine security. Especially the high resolution and wide swath (HRWS) SAR images, provides the advantages of high resolution and wide swath synchronously, significantly promotes the wide area ocean surveillance performance. In this study, a novel method is developed for ship target detection by using the HRWS SAR images. Firstly, an adaptive sliding window is developed to propose the suspected ship target areas, based upon the analysis of SAR backscattering intensity images. Then, backscattering intensity and texture features extracted from the training samples of manually selected ship and non-ship slice images, are used to train a support vector machine (SVM) to classify the proposed ship slice images. The approach is verified by using the Sentinl1A data working in interferometric wide swath mode. The results demonstrate the improvement performance of the proposed method over the constant false alarm rate (CFAR) method, where the classification accuracy improved from 88.5 % to 96.4 % and the false alarm rate mitigated from 11.5 % to 3.6 % compared with CFAR respectively.

Rotating Parabolic-Reflector Antenna Target in SAR Data: Model, Characteristics, and Parameter Estimation

Directory of Open Access Journals (Sweden)

Bin Deng

2013-01-01

Full Text Available Parabolic-reflector antennas (PRAs, usually possessing rotation, are a particular type of targets of potential interest to the synthetic aperture radar (SAR community. This paper is aimed to investigate PRA’s scattering characteristics and then to extract PRA’s parameters from SAR returns, for supporting image interpretation and target recognition. We at first obtain both closed-form and numeric solutions to PRA’s backscattering by geometrical optics (GO, physical optics, and graphical electromagnetic computation, respectively. Based on the GO solution, a migratory scattering center model is at first presented for representing the movement of the specular point with aspect angle, and then a hybrid model, named the migratory/micromotion scattering center (MMSC model, is proposed for characterizing a rotating PRA in the SAR geometry, which incorporates PRA’s rotation into its migratory scattering center model. Additionally, we in detail analyze PRA’s radar characteristics on radar cross-section, high-resolution range profiles, time-frequency distribution, and 2D images, which also confirm the models proposed. A maximal likelihood estimator is developed for jointly solving the MMSC model for PRA’s multiple parameters by optimization. By exploiting the aforementioned characteristics, the coarse parameter estimation guarantees convergency upon global minima. The signatures recovered can be favorably utilized for SAR image interpretation and target recognition.

Towards assimilation of InSAR data in operational weather models

Science.gov (United States)

Mulder, Gert; van Leijen, Freek; Barkmeijer, Jan; de Haan, Siebren; Hanssen, Ramon

2017-04-01

based on several case studies. This research can be seen as a first step towards the operational use of InSAR data in state-of-the-art weather models and can be a driver for the design and development for new SAR missions, such as NISAR. References: [1] Hanssen, R. F., Weckwerth, T. M., Zebker, H. A., & Klees, R. (1999). High-resolution water vapor mapping from interferometric radar measurements.Science, 283(5406), 1297-1299. [2] P. Mateus, R. Tomé, G. Nico and J. Catalão, "Three-Dimensional Variational Assimilation of InSAR PWV Using the WRFDA Model," in IEEE Transactions on Geoscience and Remote Sensing, vol. 54, no. 12, pp. 7323-7330, Dec. 2016. [3] Navascués, B., Calvo, J., Morales, G., Santos, C., Callado, A., Cansado, A., ... & García-Colombo, O. (2013). Long-term verification of HIRLAM and ECMWF forecasts over southern europe: History and perspectives of numerical weather prediction at AEMET. Atmospheric Research, 125, 20-33. [4] Seity, Y., P. Brousseau, S. Malardel, G. Hello, P. Bénard, F. Bouttier, C. Lac, and V. Masson, 2011: The AROME-France Convective-Scale Operational Model. Mon. Wea. Rev., 139, 976-991. [5] Lorenc, A. C. and Rawlins, F. (2005), Why does 4D-Var beat 3D-Var?. Q.J.R. Meteorol. Soc., 131: 3247-3257.

The planned Alaska SAR Facility - An overview

Science.gov (United States)

Carsey, Frank; Weeks, Wilford

1987-01-01

The Alaska SAR Facility (ASF) is described in an overview fashion. The facility consists of three major components, a Receiving Ground System, a SAR Processing System and an Analysis and Archiving System; the ASF Program also has a Science Working Team and the requisite management and operations systems. The ASF is now an approved and fully funded activity; detailed requirements and science background are presented for the facility to be implemented for data from the European ERS-1, the Japanese ERS-1 and Radarsat.

1D-Var multilayer assimilation of X-band SAR data into a detailed snowpack model

Science.gov (United States)

Phan, X. V.; Ferro-Famil, L.; Gay, M.; Durand, Y.; Dumont, M.; Morin, S.; Allain, S.; D'Urso, G.; Girard, A.

2014-10-01

The structure and physical properties of a snowpack and their temporal evolution may be simulated using meteorological data and a snow metamorphism model. Such an approach may meet limitations related to potential divergences and accumulated errors, to a limited spatial resolution, to wind or topography-induced local modulations of the physical properties of a snow cover, etc. Exogenous data are then required in order to constrain the simulator and improve its performance over time. Synthetic-aperture radars (SARs) and, in particular, recent sensors provide reflectivity maps of snow-covered environments with high temporal and spatial resolutions. The radiometric properties of a snowpack measured at sufficiently high carrier frequencies are known to be tightly related to some of its main physical parameters, like its depth, snow grain size and density. SAR acquisitions may then be used, together with an electromagnetic backscattering model (EBM) able to simulate the reflectivity of a snowpack from a set of physical descriptors, in order to constrain a physical snowpack model. In this study, we introduce a variational data assimilation scheme coupling TerraSAR-X radiometric data into the snowpack evolution model Crocus. The physical properties of a snowpack, such as snow density and optical diameter of each layer, are simulated by Crocus, fed by the local reanalysis of meteorological data (SAFRAN) at a French Alpine location. These snowpack properties are used as inputs of an EBM based on dense media radiative transfer (DMRT) theory, which simulates the total backscattering coefficient of a dry snow medium at X and higher frequency bands. After evaluating the sensitivity of the EBM to snowpack parameters, a 1D-Var data assimilation scheme is implemented in order to minimize the discrepancies between EBM simulations and observations obtained from TerraSAR-X acquisitions by modifying the physical parameters of the Crocus-simulated snowpack. The algorithm then re

Alaska Synthetic Aperture Radar (SAR) Facility science data processing architecture

Science.gov (United States)

Hilland, Jeffrey E.; Bicknell, Thomas; Miller, Carol L.

1991-01-01

The paper describes the architecture of the Alaska SAR Facility (ASF) at Fairbanks, being developed to generate science data products for supporting research in sea ice motion, ice classification, sea-ice-ocean interaction, glacier behavior, ocean waves, and hydrological and geological study areas. Special attention is given to the individual substructures of the ASF: the Receiving Ground Station (RGS), the SAR Processor System, and the Interactive Image Analysis System. The SAR data will be linked to the RGS by the ESA ERS-1 and ERS-2, the Japanese ERS-1, and the Canadian Radarsat.

Rapid Damage Assessment by Means of Multi-Temporal SAR — A Comprehensive Review and Outlook to Sentinel-1

Directory of Open Access Journals (Sweden)

Simon Plank

2014-05-01

Full Text Available Fast crisis response after natural disasters, such as earthquakes and tropical storms, is necessary to support, for instance, rescue, humanitarian, and reconstruction operations in the crisis area. Therefore, rapid damage mapping after a disaster is crucial, i.e., to detect the affected area, including grade and type of damage. Thereby, satellite remote sensing plays a key role due to its fast response, wide field of view, and low cost. With the increasing availability of remote sensing data, numerous methods have been developed for damage assessment. This article gives a comprehensive review of these techniques focusing on multi-temporal SAR procedures for rapid damage assessment: interferometric coherence and intensity correlation. The review is divided into six parts: First, methods based on coherence; second, the ones using intensity correlation; and third, techniques using both methodologies combined to increase the accuracy of the damage assessment are reviewed. Next, studies using additional data (e.g., GIS and optical imagery to support the damage assessment and increase its accuracy are reported. Moreover, selected studies on post-event SAR damage assessment techniques and examples of other applications of the interferometric coherence are presented. Then, the preconditions for a successful worldwide application of multi-temporal SAR methods for damage assessment and the limitations of current SAR satellite missions are reported. Finally, an outlook to the Sentinel-1 SAR mission shows possible solutions of these limitations, enabling a worldwide applicability of the presented damage assessment methods.

NOAA high resolution sea surface winds data from Synthetic Aperture Radar (SAR) on the Sentinel-1 satellites

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set consists of high resolution sea surface winds data produced from Synthetic Aperture Radar (SAR) on board Sentinel-1A and Sentinel-1B satellites. This...

Protective effect of CSN1S2 protein of goat milk on ileum microstructure and inflmmation in rat-CFAinduced rheumatoid arthritis

Directory of Open Access Journals (Sweden)

Rista Nikmatu Rohmah

2015-07-01

Full Text Available Objective: To observe the protective effect of goat milk alpha (S2-casein (CSN1S2 protein on ileum microstructure and inflammation in rat-complete Freund’s adjuvant-induced rheumatoid arthritis model. Methods: Twenty four male Wistar rats were divided into six groups of two models. The body weight, food intake and albumin level of all subjects were calculated. The ileum microstructures were analyzed by scanning electron microscopy. Histopathological analysis was observed by hematoxylin-eosin staining and the level expressions of immunoglobulin E, secretory immunoglobulin A, interleukin-17, interleukin-10, Ki-67 and caspase-9 were measured by using western blotting. Results: CSN1S2 protein of milk or yogurt could repair the ileum villi of rat arthritis group similar to the normal. The level expressions showed the immunoglobulin E, secretory immunoglobulin A, interleukin-17 and caspase-9 decreased in milk CSN1S2 protein and yogurt CSN1S2 protein rat groups. The level expression of interleukin-10 was increased, and also Ki- 67 was significantly increased in milk CSN1S2 protein and yogurt CSN1S2 protein rat groups. CSN1S2 protein of milk and yogurt could increase the body weight and albumin significantly, meanwhile food intake increased but not significantly. Conclusions: CSN1S2 protein of goat milk and yogurt could repair the ileum microstructure, suppress inflammatory process and also increase the body weight, food intake and albumin level. This result indicates that goat CSN1S2 protein may protect the ileum disorder in rheumatoid arthritis disease.

3D Monitoring of Buildings Using TerraSAR-X InSAR, DInSAR and PolSAR Capacities

Directory of Open Access Journals (Sweden)

Flora Weissgerber

2017-09-01

Full Text Available The rapid expansion of cities increases the need of urban remote sensing for a large scale monitoring. This paper provides greater understanding of how TerraSAR-X (TSX high-resolution abilities enable to reach the spatial precision required to monitor individual buildings, through the use of a 4 year temporal stack of 100 images over Paris (France. Three different SAR modes are investigated for this purpose. First a method involving a whole time-series is proposed to measure realistic heights of buildings. Then, we show that the small wavelength of TSX makes the interferometric products very sensitive to the ordinary building-deformation, and that daily deformation can be measured over the entire building with a centimetric accuracy, and without any a priori on the deformation evolution, even when neglecting the impact of the atmosphere. Deformations up to 4 cm were estimated for the Eiffel Tower and up to 1 cm for other lower buildings. These deformations were analyzed and validated with weather and in situ local data. Finally, four TSX polarimetric images were used to investigate geometric and dielectric properties of buildings under the deterministic framework. Despite of the resolution loss of this mode, the possibility to estimate the structural elements of a building orientations and their relative complexity in the spatial organization are demonstrated.

SARS-related perceptions in Hong Kong.

Science.gov (United States)

Lau, Joseph T F; Yang, Xilin; Pang, Ellie; Tsui, H Y; Wong, Eric; Wing, Yun Kwok

2005-03-01

To understand different aspects of community responses related to severe acute respiratory syndrome (SARS), 2 population-based, random telephone surveys were conducted in June 2003 and January 2004 in Hong Kong. More than 70% of respondents would avoid visiting hospitals or mainland China to avoid contracting SARS. Most respondents believed that SARS could be transmitted through droplets, fomites, sewage, and animals. More than 90% believed that public health measures were efficacious means of prevention; 40.4% believed that SARS would resurge in Hong Kong; and approximately equals 70% would then wear masks in public places. High percentages of respondents felt helpless, horrified, and apprehensive because of SARS. Approximately 16% showed signs of posttraumatic symptoms, and approximately equals 40% perceived increased stress in family or work settings. The general public in Hong Kong has been very vigilant about SARS but needs to be more psychologically prepared to face a resurgence of the epidemic.

Comparison of two next-generation sequencing kits for diagnosis of epileptic disorders with a user-friendly tool for displaying gene coverage, DeCovA

Directory of Open Access Journals (Sweden)

Sarra Dimassi

2015-12-01

Full Text Available In recent years, molecular genetics has been playing an increasing role in the diagnostic process of monogenic epilepsies. Knowing the genetic basis of one patient's epilepsy provides accurate genetic counseling and may guide therapeutic options. Genetic diagnosis of epilepsy syndromes has long been based on Sanger sequencing and search for large rearrangements using MLPA or DNA arrays (array-CGH or SNP-array. Recently, next-generation sequencing (NGS was demonstrated to be a powerful approach to overcome the wide clinical and genetic heterogeneity of epileptic disorders. Coverage is critical for assessing the quality and accuracy of results from NGS. However, it is often a difficult parameter to display in practice. The aim of the study was to compare two library-building methods (Haloplex, Agilent and SeqCap EZ, Roche for a targeted panel of 41 genes causing monogenic epileptic disorders. We included 24 patients, 20 of whom had known disease-causing mutations. For each patient both libraries were built in parallel and sequenced on an Ion Torrent Personal Genome Machine (PGM. To compare coverage and depth, we developed a simple homemade tool, named DeCovA (Depth and Coverage Analysis. DeCovA displays the sequencing depth of each base and the coverage of target genes for each genomic position. The fraction of each gene covered at different thresholds could be easily estimated. None of the two methods used, namely NextGene and Ion Reporter, were able to identify all the known mutations/CNVs displayed by the 20 patients. Variant detection rate was globally similar for the two techniques and DeCovA showed that failure to detect a mutation was mainly related to insufficient coverage.

SU-F-I-27: Measurement of SAR and Temperature Elevation During MRI Scans

Energy Technology Data Exchange (ETDEWEB)

Seo, Y [Korea Research Institute of Standards and Science, Daejeon (Korea, Republic of)

2016-06-15

Purpose: The poor reliability and repeatability of the manufacturer-reported SAR values on clinical MRI systems have been acknowledged. The purpose of this study is to not only measure SAR values, but also RF-induced temperature elevation at 1.5 and 3T MRI systems. Methods: SAR measurement experiment was performed at 1.5 and 3T. Three MRI RF sequences (T1w TSE, T1w inversion recovery, and T2w TSE) with imaging parameters were selected. A hydroxyl-ethylcelluose (HEC) gelled saline phantom mimicking human body tissue was made. Human torso phantom were constructed, based on Korean adult standard anthropometric reference data (Fig.1). FDTD method was utilized to calculate the SAR distribution using Sim4Life software. Based on the results of the simulation, 4 electrical field (E-field) sensors were located inside the phantom. 55 Fiber Bragg Grating (FBG) temperature sensors (27 sensors in upper and lower cover lids, and one sensor located in the center as a reference) were located inside the phantom to measure temperature change during MRI scan (Fig.2). Results: Simulation shows that SAR value is 0.4 W/kg in the periphery and 0.001 W/kg in the center (Fig.2). One 1.5T and one of two 3T MRI systems represent that the measured SAR values were lower than MRI scanner-reported SAR values. However, the other 3T MRI scanner shows that the averaged SAR values measured by probe 2, 3, and 4 are 6.83, 7.59, and 6.01 W/kg, compared to MRI scanner-reported whole body SAR value (<1.5 W/kg) for T2w TSE (Table 1). The temperature elevation measured by FBG sensors is 5.2°C in the lateral shoulder, 5.1°C in the underarm, 4.7°C in the anterior axilla, 4.8°C in the posterior axilla, and 4.8°C in the lateral waist for T2w TSE (Fig.3). Conclusion: It is essential to assess the safety of MRI system for patient by measuring accurate SAR deposited in the body during clinical MRI.

SAR: Stroke Authorship Recognition

KAUST Repository

Shaheen, Sara; Rockwood, Alyn; Ghanem, Bernard

2015-01-01

Are simple strokes unique to the artist or designer who renders them? If so, can this idea be used to identify authorship or to classify artistic drawings? Also, could training methods be devised to develop particular styles? To answer these questions, we propose the Stroke Authorship Recognition (SAR) approach, a novel method that distinguishes the authorship of 2D digitized drawings. SAR converts a drawing into a histogram of stroke attributes that is discriminative of authorship. We provide extensive classification experiments on a large variety of data sets, which validate SAR's ability to distinguish unique authorship of artists and designers. We also demonstrate the usefulness of SAR in several applications including the detection of fraudulent sketches, the training and monitoring of artists in learning a particular new style and the first quantitative way to measure the quality of automatic sketch synthesis tools. © 2015 The Eurographics Association and John Wiley & Sons Ltd.

Three-Dimensional Human Bronchial-Tracheal Epithelial Tissue-Like Assemblies (TLAs) as Hosts for Severe Acute Respiratory Syndrome (SARS)-CoV Infection

Science.gov (United States)

Suderman, M. T.; McCarthy, M.; Mossell, E.; Watts, D. M.; Peters, C. J.; Shope, R.; Goodwin, T. J.

2006-01-01

A three-dimensional (3-D) tissue-like assembly (TLA) of human bronchial-tracheal mesenchymal (HBTC) cells with an overlay of human bronchial epithelial (BEAS-2B) cells was constructed using a NASA Bioreactor to survey the infectivity of SARS-CoV. This TLA was inoculated with a low passage number Urbani strain of SARS-CoV. At selected intervals over a 10-day period, media and cell aliquots of the 3-D TLA were harvested for viral titer assay and for light and electron microscopy examination. All viral titer assays were negative in both BEAS-2B two-dimensional monolayer and TLA. Light microscopy immunohistochemistry demonstrated antigen-antibody reactivity with anti-SARS-CoV polyclonal antibody to spike and nuclear proteins on cell membranes and cytoplasm. Coronavirus Group 2 cross-reactivity was demonstrated by positive reaction to anti-FIPV 1 and anti-FIPV 1 and 2 antibodies. TLA examination by transmission electron microscopy indicated increasing cytoplasmic vacuolation with numerous electron-dense bodies measuring 45 to 270 nm from days 4 through 10. There was no evidence of membrane blebbing, membrane duplication, or fragmentation of organelles in the TLAs. However, progressive disruption of endoplasmic reticulum was observed throughout the cells. Antibody response to SARS-CoV specific spike and nucleocapsid glycoproteins, cross-reactivity with FIPV antibodies, and the cytoplasmic pathology suggests this HBTE TLA model is permissive to SARS-CoV infection.

LANDSAT TM and SAR - ERS1 data for analysis of Vrancea seismic region

International Nuclear Information System (INIS)

Zoran, M.

2002-01-01

This paper is aimed to present the results of the application of LANDSAT TM and SAR- ERS1 satellite data for Vrancea seismic area investigation, in order to emphasize geomorphological features as well as to identify faulting zones responsible of seismic events generation. Remote sensing analysis and field studies of active faults can provide a geologic history that overcomes many of the shortcomings of instrumental and historic records. Vrancea - Focsani is structurally and seismically complex area, bounded by latitudes 45.6 angle N and 46.0 angle N and longitudes 26.5 angle E and 27.5 angle E. The Peceneaga -Camena Fault, a deep crustal fracture with dextral slip, is considered to be North-Eastern boundary of the Moesian Platform. The Eastern unit of the Moesian Sub-Plate is characterized by a series of principal faults with a North-Western orientation and by a secondary system of faults orientated NE-SW. NW trending crustal fractures are also evidenced East of the Peceneaga-Camena Fault, within our test area. A SAR- ERS1 image and a multispectral Landsat TM data set were used and processed with EASI/PACE image processing software package as well as with developed algorithms. In order to a better management all the information available on the study area, data acquired have been integrated in a unique database. This information consists of thematic maps from cartography, land use map from classification of remotely sensed data. This study revealed that satellite data used are excellent for recognizing the continuity and regional relationships of faults. Linear features in TM images appear shorter and denser distributed, whereas ERS1 images are dominated by the principal structures. In certain cases they complete the lineaments and lineament patterns derived from TM data. Higher spatial resolution satellite data and SAR interferometric data are needed for mapping of these features. Remote sensing techniques provide a means for locating, identifying and mapping

Report on workshop "Study of the Antarctic ice sheet and glacier using ERS-1/JERS-1 SAR data"

Directory of Open Access Journals (Sweden)

Naohiko Hirasawa

1996-07-01

Full Text Available The main purpose of the workshop is to discuss recent results of Antarctic research using SAR data. It was held on February 6,1996 at the National Institute of Polar Research (NIPR, the number of participants being about 30. The contents of the workshop are demonstration of various SAR images, comparison with pictures from an airplane and visible images, comparison with observational data on ice conditions and demonstration of problems in interferometry.

Precision Rectification of Airborne SAR Image

DEFF Research Database (Denmark)

Dall, Jørgen; Liao, M.; Zhang, Zhe

1997-01-01

A simple and direct procedure for the rectification of a certain class of airborne SAR data is presented. The relief displacements of SAR data are effectively removed by means of a digital elevation model and the image is transformed to the ground coordinate system. SAR data from the Danish EMISAR...

Automatic Coregistration for Multiview SAR Images in Urban Areas

Science.gov (United States)

Xiang, Y.; Kang, W.; Wang, F.; You, H.

2017-09-01

Due to the high resolution property and the side-looking mechanism of SAR sensors, complex buildings structures make the registration of SAR images in urban areas becomes very hard. In order to solve the problem, an automatic and robust coregistration approach for multiview high resolution SAR images is proposed in the paper, which consists of three main modules. First, both the reference image and the sensed image are segmented into two parts, urban areas and nonurban areas. Urban areas caused by double or multiple scattering in a SAR image have a tendency to show higher local mean and local variance values compared with general homogeneous regions due to the complex structural information. Based on this criterion, building areas are extracted. After obtaining the target regions, L-shape structures are detected using the SAR phase congruency model and Hough transform. The double bounce scatterings formed by wall and ground are shown as strong L- or T-shapes, which are usually taken as the most reliable indicator for building detection. According to the assumption that buildings are rectangular and flat models, planimetric buildings are delineated using the L-shapes, then the reconstructed target areas are obtained. For the orignal areas and the reconstructed target areas, the SAR-SIFT matching algorithm is implemented. Finally, correct corresponding points are extracted by the fast sample consensus (FSC) and the transformation model is also derived. The experimental results on a pair of multiview TerraSAR images with 1-m resolution show that the proposed approach gives a robust and precise registration performance, compared with the orignal SAR-SIFT method.

Hydrodynamics of the groundwater-fed Sian Ka'an Wetlands, Mexico, From InSAR and SAR Data

DEFF Research Database (Denmark)

Gondwe, Bibi Ruth Neuman; Hong, S.; Wdowinski, S.

2008-01-01

The 5300 km2 pristine Sian Ka'an wetland in Mexico is fed entirely by groundwater from the karst aquifer of the Yucatan Peninsula. The area is undeveloped and hence difficult to access. The inflow through underground rivers and karst structures is hard to observe resulting in difficulties......-changes of the backscattered radar signal, which can be related to the water level changes in vegetated wetlands. SAR data reveals information of surface properties such as the degree of flooding through the amplitude of the backscattered signal. We used RADARSAT-1 InSAR and SAR data to form 36 interferograms and 13 flooding...... maps with 24 to 48 day intervals covering the time span of October 2006 to March 2008. The dataset has a high spatial resolution of ca. 20 to 60 m. Sian Ka'an consists of a mosaic of freshwater sloughs, canals, floodplains and brackish tidally-influenced areas. Throughout most of the year, water level...

Cardiac glycoside activities link Na(+)/K(+) ATPase ion-transport to breast cancer cell migration via correlative SAR.

Science.gov (United States)

Magpusao, Anniefer N; Omolloh, George; Johnson, Joshua; Gascón, José; Peczuh, Mark W; Fenteany, Gabriel

2015-02-20

The cardiac glycosides ouabain and digitoxin, established Na(+)/K(+) ATPase inhibitors, were found to inhibit MDA-MB-231 breast cancer cell migration through an unbiased chemical genetics screen for cell motility. The Na(+)/K(+) ATPase acts both as an ion-transporter and as a receptor for cardiac glycosides. To delineate which function is related to breast cancer cell migration, structure-activity relationship (SAR) profiles of cardiac glycosides were established at the cellular (cell migration inhibition), molecular (Na(+)/K(+) ATPase inhibition), and atomic (computational docking) levels. The SAR of cardiac glycosides and their analogs revealed a similar profile, a decrease in potency when the parent cardiac glycoside structure was modified, for each activity investigated. Since assays were done at the cellular, molecular, and atomic levels, correlation of SAR profiles across these multiple assays established links between cellular activity and specific protein-small molecule interactions. The observed antimigratory effects in breast cancer cells are directly related to the inhibition of Na(+)/K(+) transport. Specifically, the orientation of cardiac glycosides at the putative cation permeation path formed by transmembrane helices αM1-M6 correlates with the Na(+) pump activity and cell migration. Other Na(+)/K(+) ATPase inhibitors that are structurally distinct from cardiac glycosides also exhibit antimigratory activity, corroborating the conclusion that the antiport function of Na(+)/K(+) ATPase and not the receptor function is important for supporting the motility of MDA-MB-231 breast cancer cells. Correlative SAR can establish new relationships between specific biochemical functions and higher-level cellular processes, particularly for proteins with multiple functions and small molecules with unknown or various modes of action.

Study on Zero-Doppler Centroid Control for GEO SAR Ground Observation

Directory of Open Access Journals (Sweden)

Yicheng Jiang

2014-01-01

Full Text Available In geosynchronous Earth orbit SAR (GEO SAR, Doppler centroid compensation is a key step for imaging process, which could be performed by the attitude steering of a satellite platform. However, this zero-Doppler centroid control method does not work well when the look angle of radar is out of an expected range. This paper primarily analyzes the Doppler properties of GEO SAR in the Earth rectangular coordinate. Then, according to the actual conditions of the GEO SAR ground observation, the effective range is presented by the minimum and maximum possible look angles which are directly related to the orbital parameters. Based on the vector analysis, a new approach for zero-Doppler centroid control in GEO SAR, performing the attitude steering by a combination of pitch and roll rotation, is put forward. This approach, considering the Earth’s rotation and elliptical orbit effects, can accurately reduce the residual Doppler centroid. All the simulation results verify the correctness of the range of look angle and the proposed steering method.

SARS CTL vaccine candidates; HLA supertype-, genome-wide scanning and biochemical validation

DEFF Research Database (Denmark)

Sylvester-Hvid, C.; Nielsen, Morten; Lamberth, K.

2004-01-01

. Exact knowledge of how the immune system handles protein antigens would allow for the identification of such linear sequences directly, from genomic/proteomic sequence information (Lauemoller et al., Rev Immunogenet 2001: 2: 477-91). The latter was recently established when a causative coronavirus (SARS...

Junction region of EWS-FLI1 fusion protein has a dominant negative effect in Ewing’s Sarcoma in vitro

International Nuclear Information System (INIS)

Jully, Babu; Vijayalakshmi, Ramshankar; Gopal, Gopisetty; Sabitha, Kesavan; Rajkumar, Thangarajan

2012-01-01

Ewing’s sarcoma is a malignancy characterized by a specific 11:22 chromosomal translocation which generates a novel EWS-FLI1 fusion protein functioning as an aberrant transcription factor. In the present study, we have further characterized the junction region of the EWS-FLI1 fusion protein. In-silico model of EWS-FLI1 fusion protein was analysed for ligand binding sites, and a putative region (amino acid (aa) 251–343 of the type 1 fusion protein) in the vicinity of the fusion junction was cloned and expressed using bacterial expression. The recombinant protein was characterized by Circular Dichroism (CD). We then expressed aa 251–280 ectopically in Ewing’s sarcoma cell-line and its effect on cell proliferation, tumorigenicity and expression of EWS-FLI1 target genes were analysed. Our modelling analysis indicated that Junction region (aa 251–343) encompasses potential ligand biding sites in the EWS-FLI1 protein and when expressed in bacteria was present as soluble form. Ectopically expressing this region in Ewing’s sarcoma cells inhibited tumorigenicity, and EWS-FLI1 target genes indicating a dominant negative biological effect. Junction region can be exploited further as target for drug development in future to specifically target EWS-FLI1 in Ewing’s Sarcoma

The Temporal-Spatial Distribution of Shule River Alluvial Fan Units in China Based on SAR Data and OSL Dating

Directory of Open Access Journals (Sweden)

Lu Zhang

2013-12-01

Full Text Available Alluvial fans in arid and semi-arid regions can provide important evidence of geomorphic and climatic changes, which reveal the evolution of the regional tectonic activity and environment. Synthetic aperture radar (SAR remote sensing technology, which is sensitive to geomorphic features, plays an important role in quickly mapping alluvial fan units of different ages. In this paper, RADARSAT-2 (Canada’s C-band new-generation radar satellite and ALOS-PALSAR (Japan’s advanced land observing satellite, phased array type L-band SAR sensor data, acquired over the Shule River Alluvial Fan (SRAF, are used to extract backscattering coefficients, scattering mechanism-related information, and polarimetric characteristic parameters. The correlation between these SAR characteristic parameters and fan units of the SRAF of different ages was studied, and the spatial distribution of fan units, since the Late Pleistocene, was extracted based on the Maximum Likelihood classification method. The results prove that (1 some C-band SAR parameters can describe the geomorphic characteristics of alluvial fan units of different ages in the SRAF; (2 SAR data can be used to map the SRAF’s surface between the Late Pleistocene and the Holocene and to extract the spatial distribution of fan units; and (3 the time-spatial distribution of the SRAF can provide valuable information for tectonic and paleoenvironmental research of the study area.

SARS: systematic review of treatment effects.

Directory of Open Access Journals (Sweden)

Lauren J Stockman

2006-09-01

Full Text Available BACKGROUND: The SARS outbreak of 2002-2003 presented clinicians with a new, life-threatening disease for which they had no experience in treating and no research on the effectiveness of treatment options. The World Health Organization (WHO expert panel on SARS treatment requested a systematic review and comprehensive summary of treatments used for SARS-infected patients in order to guide future treatment and identify priorities for research. METHODS AND FINDINGS: In response to the WHO request we conducted a systematic review of the published literature on ribavirin, corticosteroids, lopinavir and ritonavir (LPV/r, type I interferon (IFN, intravenous immunoglobulin (IVIG, and SARS convalescent plasma from both in vitro studies and in SARS patients. We also searched for clinical trial evidence of treatment for acute respiratory distress syndrome. Sources of data were the literature databases MEDLINE, EMBASE, BIOSIS, and the Cochrane Central Register of Controlled Trials (CENTRAL up to February 2005. Data from publications were extracted and evidence within studies was classified using predefined criteria. In total, 54 SARS treatment studies, 15 in vitro studies, and three acute respiratory distress syndrome studies met our inclusion criteria. Within in vitro studies, ribavirin, lopinavir, and type I IFN showed inhibition of SARS-CoV in tissue culture. In SARS-infected patient reports on ribavirin, 26 studies were classified as inconclusive, and four showed possible harm. Seven studies of convalescent plasma or IVIG, three of IFN type I, and two of LPV/r were inconclusive. In 29 studies of steroid use, 25 were inconclusive and four were classified as causing possible harm. CONCLUSIONS: Despite an extensive literature reporting on SARS treatments, it was not possible to determine whether treatments benefited patients during the SARS outbreak. Some may have been harmful. Clinical trials should be designed to validate a standard protocol for dosage

Dissociation of activated protein C functions by elimination of protein S cofactor enhancement.

LENUS (Irish Health Repository)

Harmon, Shona

2008-11-07

Activated protein C (APC) plays a critical anticoagulant role in vivo by inactivating procoagulant factor Va and factor VIIIa and thus down-regulating thrombin generation. In addition, APC bound to the endothelial cell protein C receptor can initiate protease-activated receptor-1 (PAR-1)-mediated cytoprotective signaling. Protein S constitutes a critical cofactor for the anticoagulant function of APC but is not known to be involved in regulating APC-mediated protective PAR-1 signaling. In this study we utilized a site-directed mutagenesis strategy to characterize a putative protein S binding region within the APC Gla domain. Three single amino acid substitutions within the APC Gla domain (D35T, D36A, and A39V) were found to mildly impair protein S-dependent anticoagulant activity (<2-fold) but retained entirely normal cytoprotective activity. However, a single amino acid substitution (L38D) ablated the ability of protein S to function as a cofactor for this APC variant. Consequently, in assays of protein S-dependent factor Va proteolysis using purified proteins or in the plasma milieu, APC-L38D variant exhibited minimal residual anticoagulant activity compared with wild type APC. Despite the location of Leu-38 in the Gla domain, APC-L38D interacted normally with endothelial cell protein C receptor and retained its ability to trigger PAR-1 mediated cytoprotective signaling in a manner indistinguishable from that of wild type APC. Consequently, elimination of protein S cofactor enhancement of APC anticoagulant function represents a novel and effective strategy by which to separate the anticoagulant and cytoprotective functions of APC for potential therapeutic gain.

ERS-1 SAR monitoring of ice growth on shallow lakes to determine water depth and availability in north west Alaska

Science.gov (United States)

Jeffries, Martin; Morris, Kim; Liston, Glen

1996-01-01

Images taken by the ERS-1 synthetic aperture radar (SAR) were used to identify and to differentiate between the lakes that freeze completely to the bottom and those that do not, on the North Slope, in northwestern Alaska. The ice thickness at the time each lake froze completely is determined with numerical ice growth model that gives a maximum simulated thickness of 2.2 m. A method combining the ERS-1 SAR images and numerical ice growth model was used to determine the ice growth and the water availability in these regions.

SARS knowledge, perceptions, and behaviors: a comparison between Finns and the Dutch during the SARS outbreak in 2003

NARCIS (Netherlands)

Vartti, A.M.; Oenema, A.; Schreck, M.; Uutela, A.; Zwart, de O.; Brug, J.; Aro, A.R.

2009-01-01

BACKGROUND: The SARS outbreak served to test both local and international outbreak management and risk communication practices. PURPOSE: The study compares SARS knowledge, perceptions, behaviors, and information between Finns and the Dutch during the SARS outbreak in 2003. METHOD: The participants

Role of p70S6K1-mediated phosphorylation of eIF4B and PDCD4 proteins in the regulation of protein synthesis.

Science.gov (United States)

Dennis, Michael D; Jefferson, Leonard S; Kimball, Scot R

2012-12-14

Modulation of mRNA binding to the 40 S ribosomal subunit during translation initiation controls not only global rates of protein synthesis but also regulates the pattern of protein expression by allowing for selective inclusion, or exclusion, of mRNAs encoding particular proteins from polysomes. The mRNA binding step is modulated by signaling through a protein kinase known as the mechanistic target of rapamycin complex 1 (mTORC1). mTORC1 directly phosphorylates the translational repressors eIF4E binding proteins (4E-BP) 1 and 2, releasing them from the mRNA cap binding protein eIF4E, thereby promoting assembly of the eIF4E·eIF4G complex. mTORC1 also phosphorylates the 70-kDa ribosomal protein S6 kinase 1 (p70S6K1), which subsequently phosphorylates eIF4B, and programmed cell death 4 (PDCD4), which sequesters eIF4A from the eIF4E·eIF4G complex, resulting in repressed translation of mRNAs with highly structured 5'-untranslated regions. In the present study, we compared the role of the 4E-BPs in the regulation of global rates of protein synthesis to that of eIF4B and PDCD4. We found that maintenance of eIF4E interaction with eIF4G was not by itself sufficient to sustain global rates of protein synthesis in the absence of mTORC1 signaling to p70S6K1; phosphorylation of both eIF4B and PDCD4 was additionally required. We also found that the interaction of eIF4E with eIF4G was maintained in the liver of fasted rats as well as in serum-deprived mouse embryo fibroblasts lacking both 4E-BP1 and 4E-BP2, suggesting that the interaction of eIF4G with eIF4E is controlled primarily through the 4E-BPs.

UAVSAR and TerraSAR-X Based InSAR Detection of Localized Subsidence in the New Orleans Area

Science.gov (United States)

Blom, R. G.; An, K.; Jones, C. E.; Latini, D.

2014-12-01

Vulnerability of the US Gulf coast to inundation has received increased attention since hurricanes Katrina and Rita. Compounding effects of sea level rise, wetland loss, and regional and local subsidence makes flood protection a difficult challenge, and particularly for the New Orleans area. Key to flood protection is precise knowledge of elevations and elevation changes. Analysis of historical and continuing geodetic measurements show surprising complexity, including locations subsiding more rapidly than considered during planning of hurricane protection and coastal restoration projects. Combining traditional, precise geodetic data with interferometric synthetic aperture radar (InSAR) observations can provide geographically dense constraints on surface deformation. The Gulf Coast environment is challenging for InSAR techniques, especially with systems not designed for interferometry. We use two InSAR capable systems, the L- band (24 cm wavelength) airborne JPL/NASA UAVSAR, and the DLR/EADS Astrium spaceborne TerraSAR X-band (3 cm wavelength), and compare results. First, we are applying pair-wise InSAR to the longer wavelength UAVSAR data to detect localized elevation changes potentially impacting flood protection infrastructure from 2009 - 2014. We focus on areas on and near flood protection infrastructure to identify changes indicative of subsidence, structural deformation, and/or seepage. The Spaceborne TerraSAR X-band SAR system has relatively frequent observations, and dense persistent scatterers in urban areas, enabling measurement of very small displacements. We compare L-band UAVSAR results with permanent scatterer (PS-InSAR) and Short Baseline Subsets (SBAS) interferometric analyses of a stack composed by 28 TerraSAR X-band images acquired over the same period. Thus we can evaluate results from the different radar frequencies and analyses techniques. Preliminary results indicate subsidence features potentially of a variety of causes, including ground water

Initial assessment of an airborne Ku-band polarimetric SAR.

Energy Technology Data Exchange (ETDEWEB)

Raynal, Ann Marie; Doerry, Armin Walter

2013-02-01

Polarimetric synthetic aperture radar (SAR) has been used for a variety of dual-use research applications since the 1940s. By measuring the direction of the electric field vector from radar echoes, polarimetry may enhance an analysts understanding of scattering effects for both earth monitoring and tactical surveillance missions. Polarimetry may provide insight into surface types, materials, or orientations for natural and man-made targets. Polarimetric measurements may also be used to enhance the contrast between scattering surfaces such as man-made objects and their surroundings. This report represents an initial assessment of the utility of, and applications for, polarimetric SAR at Ku-band for airborne or unmanned aerial systems.

Investigation of Slow-Moving Landslides from ALOS/PALSAR Images with TCPInSAR: A Case Study of Oso, USA

Directory of Open Access Journals (Sweden)

Qian Sun

2014-12-01

Full Text Available Monitoring slope instability is of great significance for understanding landslide kinematics and, therefore, reducing the related geological hazards. In recent years, interferometric synthetic aperture radar (InSAR has been widely applied to this end, especially thanks to the prompt evolution of multi-temporal InSAR (MTInSAR algorithms. In this paper, temporarily-coherent point InSAR (TCPInSAR, a recently-developed MTInSAR technique, is employed to investigate the slow-moving landslides in Oso, U.S., with 13 ALOS/PALSAR images. Compared to other MTInSAR techniques, TCPInSAR can work well with a small amount of data and is immune to unwrapping errors. Furthermore, the severe orbital ramps emanated from the inaccurate determination of the ALOS satellite’s state vector can be jointly estimated by TCPInSAR, resulting in an exhaustive separation between the orbital errors and displacement signals. The TCPInSAR-derived deformation map indicates that the riverside slopes adjacent to the North Fork of the Stillaguamish River, where the 2014 mudslide occurred, were active during 2007 and 2011. Besides, Coal Mountain has been found to be experiencing slow-moving landslides with clear boundaries and considerable magnitudes. The Deer Creek River is also threatened by a potential landslide dam due to the creeps detected in a nearby slope. The slope instability information revealed in this study is helpful to deal with the landslide hazards in Oso.

The Use of C-/X-Band Time-Gapped SAR Data and Geotechnical Models for the Study of Shanghai’s Ocean-Reclaimed Lands through the SBAS-DInSAR Technique

Directory of Open Access Journals (Sweden)

Antonio Pepe

2016-11-01

Full Text Available In this work, we investigate the temporal evolution of ground deformation affecting the ocean-reclaimed lands of the Shanghai (China megacity, from 2007 to 2016, by applying the Differential Synthetic Aperture Radar Interferometry (DInSAR technique known as the Small BAseline Subset (SBAS algorithm. For the analysis, we exploited two sets of non-time-overlapped synthetic aperture radar (SAR data, acquired from 2007 to 2010, by the ASAR/ENVISAT (C-band instrument, and from 2014 to 2016 by the X-band COSMO-SkyMed (CSK sensors. The long time gap (of about three years existing between the available C- and X-band datasets made the generation of unique displacement time-series more difficult. Nonetheless, this problem was successfully solved by benefiting from knowledge of time-dependent geotechnical models, which describe the temporal evolution of the expected deformation affecting Shanghai’s ocean-reclaimed platforms. The combined ENVISAT/CSK (vertical deformation time-series were analyzed to gain insight into the future evolution of displacement signals within the investigated area. As an outcome, we find that ocean-reclaimed lands in Shanghai experienced, between 2007 and 2016, average cumulative (vertical displacements extending down to 25 centimeters.

Monitoring of ground movement in open pit iron mines of Carajás Province (Amazon region) based on A-DInSAR techniques using TerraSAR-X data

Science.gov (United States)

Silva, Guilherme Gregório; Mura, José Claudio; Paradella, Waldir Renato; Gama, Fabio Furlan; Temporim, Filipe Altoé

2017-04-01

Persistent scatterer interferometry (PSI) analysis of a large area is always a challenging task regarding the removal of the atmospheric phase component. This work presents an investigation of ground movement measurements based on a combination of differential SAR interferometry time-series (DTS) and PSI techniques, applied on a large area of extent with open pit iron mines located in Carajás (Brazilian Amazon Region), aiming at detecting linear and nonlinear ground movement. These mines have presented a history of instability, and surface monitoring measurements over sectors of the mines (pit walls) have been carried out based on ground-based radar and total station (prisms). Using a priori information regarding the topographic phase error and a phase displacement model derived from DTS, temporal phase unwrapping in the PSI processing and the removal of the atmospheric phases can be performed more efficiently. A set of 33 TerraSAR-X (TSX-1) images, acquired during the period from March 2012 to April 2013, was used to perform this investigation. The DTS analysis was carried out on a stack of multilook unwrapped interferograms using an extension of SVD to obtain the least-square solution. The height errors and deformation rates provided by the DTS approach were subtracted from the stack of interferograms to perform the PSI analysis. This procedure improved the capability of the PSI analysis for detecting high rates of deformation, as well as increased the numbers of point density of the final results. The proposed methodology showed good results for monitoring surface displacement in a large mining area, which is located in a rain forest environment, providing very useful information about the ground movement for planning and risk control.

S-Nitrosation destabilizes glutathione transferase P1-1.

Science.gov (United States)

Balchin, David; Stoychev, Stoyan H; Dirr, Heini W

2013-12-23

Protein S-nitrosation is a post-translational modification that regulates the function of more than 500 human proteins. Despite its apparent physiological significance, S-nitrosation is poorly understood at a molecular level. Here, we investigated the effect of S-nitrosation on the activity, structure, stability, and dynamics of human glutathione transferase P1-1 (GSTP1-1), an important detoxification enzyme ubiquitous in aerobes. S-Nitrosation at Cys47 and Cys101 reduces the activity of the enzyme by 94%. Circular dichroism spectroscopy, acrylamide quenching, and amide hydrogen-deuterium exchange mass spectrometry experiments indicate that the loss of activity is caused by the introduction of local disorder at the active site of GSTP1-1. Furthermore, the modification destabilizes domain 1 of GSTP1-1 against denaturation, smoothing the unfolding energy landscape of the protein and introducing a refolding defect. In contrast, S-nitrosation at Cys101 alone introduces a refolding defect in domain 1 but compensates by stabilizing the domain kinetically. These data elucidate the physical basis for the regulation of GSTP1-1 by S-nitrosation and provide general insight into the consequences of S-nitrosation on protein stability and dynamics.

Evidence of rock slope breathing using ground-based InSAR

Science.gov (United States)

Rouyet, Line; Kristensen, Lene; Derron, Marc-Henri; Michoud, Clément; Blikra, Lars Harald; Jaboyedoff, Michel; Lauknes, Tom Rune

2017-07-01

Ground-Based Interferometric Synthetic Aperture Radar (GB-InSAR) campaigns were performed in summer 2011 and 2012 in the Romsdalen valley (Møre & Romsdal county, western Norway) in order to assess displacements on Mannen/Børa rock slope. Located 1 km northwest, a second GB-InSAR system continuously monitors the large Mannen rockslide. The availability of two GB-InSAR positions creates a wide coverage of the rock slope, including a slight dataset overlap valuable for validation. A phenomenon of rock slope breathing is detected in a remote and hard-to-access area in mid-slope. Millimetric upward displacements are recorded in August 2011. Analysis of 2012 GB-InSAR campaign, combined with the large dataset from the continuous station, shows that the slope is affected by inflation/deflation phenomenon between 5 and 10 mm along the line-of-sight. The pattern is not homogenous in time and inversions of movement have a seasonal recurrence. These seasonal changes are confirmed by satellite InSAR observations and can possibly be caused by hydrogeological variations. In addition, combination of GB-InSAR results, in situ measurements and satellite InSAR analyses contributes to a better overview of movement distribution over the whole area.

Epstein-Barr virus-encoded EBNA-5 binds to Epstein-Barr virus-induced Fte1/S3a protein

International Nuclear Information System (INIS)

Kashuba, Elena; Yurchenko, Mariya; Szirak, Krisztina; Stahl, Joachim; Klein, George; Szekely, Laszlo

2005-01-01

Epstein-Barr virus (EBV) transforms resting human B cells into immortalized immunoblasts. EBV-encoded nuclear antigens EBNA-5 (also called EBNA-LP) is one of the earliest viral proteins expressed in freshly infected B cells. We have recently shown that EBNA-5 binds p14ARF, a nucleolar protein that regulates the p53 pathway. Here, we report the identification of another protein with partially nucleolar localization, the v-fos transformation effector Fte-1 (Fte-1/S3a), as an EBNA-5 binding partner. In transfected cells, Fte-1/S3a and EBNA-5 proteins showed high levels of colocalization in extranucleolar inclusions. Fte-1/S3a has multiple biological functions. It enhances v-fos-mediated cellular transformation and is part of the small ribosomal subunit. It also interacts with the transcriptional factor CHOP and apoptosis regulator poly(ADP-ribose) polymerase (PARP). Fte-1/S3a is regularly expressed at high levels in both tumors and cancer cell lines. Its high expression favors the maintenance of malignant phenotype and undifferentiated state, whereas its down-regulation is associated with cellular differentiation and growth arrest. Here, we show that EBV-induced B cell transformation leads to the up-regulation of Fte-1/S3a. We suggest that EBNA-5 through binding may influence the growth promoting, differentiation inhibiting, or apoptosis regulating functions of Fte-1/S3a

SAR Raw Data Generation for Complex Airport Scenes

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Jia Li

2014-10-01

Full Text Available The method of generating the SAR raw data of complex airport scenes is studied in this paper. A formulation of the SAR raw signal model of airport scenes is given. Via generating the echoes from the background, aircrafts and buildings, respectively, the SAR raw data of the unified SAR imaging geometry is obtained from their vector additions. The multipath scattering and the shadowing between the background and different ground covers of standing airplanes and buildings are analyzed. Based on the scattering characteristics, coupling scattering models and SAR raw data models of different targets are given, respectively. A procedure is given to generate the SAR raw data of airport scenes. The SAR images from the simulated raw data demonstrate the validity of the proposed method.

Deep learning for SAR image formation

Science.gov (United States)

Mason, Eric; Yonel, Bariscan; Yazici, Birsen

2017-04-01

The recent success of deep learning has lead to growing interest in applying these methods to signal processing problems. This paper explores the applications of deep learning to synthetic aperture radar (SAR) image formation. We review deep learning from a perspective relevant to SAR image formation. Our objective is to address SAR image formation in the presence of uncertainties in the SAR forward model. We present a recurrent auto-encoder network architecture based on the iterative shrinkage thresholding algorithm (ISTA) that incorporates SAR modeling. We then present an off-line training method using stochastic gradient descent and discuss the challenges and key steps of learning. Lastly, we show experimentally that our method can be used to form focused images in the presence of phase uncertainties. We demonstrate that the resulting algorithm has faster convergence and decreased reconstruction error than that of ISTA.

Object Georeferencing in UAV-Based SAR Terrain Images

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Łabowski Michał

2016-12-01

Full Text Available Synthetic aperture radars (SAR allow to obtain high resolution terrain images comparable with the resolution of optical methods. Radar imaging is independent on the weather conditions and the daylight. The process of analysis of the SAR images consists primarily of identifying of interesting objects. The ability to determine their geographical coordinates can increase usability of the solution from a user point of view. The paper presents a georeferencing method of the radar terrain images. The presented images were obtained from the SAR system installed on board an Unmanned Aerial Vehicle (UAV. The system was developed within a project under acronym WATSAR realized by the Military University of Technology and WB Electronics S.A. The source of the navigation data was an INS/GNSS system integrated by the Kalman filter with a feed-backward correction loop. The paper presents the terrain images obtained during flight tests and results of selected objects georeferencing with an assessment of the accuracy of the method.

Coordinate induction of IFN-α and -γ by SARS-CoV also in the absence of virus replication

International Nuclear Information System (INIS)

Castilletti, Concetta; Bordi, Licia; Lalle, Eleonora; Rozera, Gabriella; Poccia, Fabrizio; Agrati, Chiara; Abbate, Isabella; Capobianchi, Maria R.

2005-01-01

Background:: Severe acute respiratory syndrome (SARS) is an emerging infection caused by a novel coronavirus known as SARS-CoV, characterized by an over-exuberant immune response with lung lymphomononuclear cells infiltration and proliferation that may account for tissue damage more than the direct effect of viral replication. This study is aimed at investigating the capability of SARS-CoV to activate IFN-α and -γ expression in lymphomonocytes (PBMC) from healthy donors, evaluating whether viral replication is necessary for this activation. Results:: SARS-CoV virus is able to induce both IFN-α and -γ mRNA accumulation and protein release in a dose-dependent manner, MOI 10 being the most effective. The time course curve indicated that IFN-α mRNA induction peaked at 24 h.p.i,. whereas IFN-γ mRNA was still increasing at 48 h.p.i. Released IFN (both types) reached a plateau after 24-48 h.p.i. and remained rather stable over a 5-day period. A transient peak of negative strand viral RNA was detected after 1-2 days of infection, but neither infectious virus progeny yield nor newly produced viral genomic RNA could be evidenced in infected cultures, even after prolonged observation time (up to 13 days). Cocultivation of PBMC with fixed SARS-CoV-infected Vero cells was even more efficient than exposure to live virus in eliciting IFN-α and -γ induction. A combination of IFN-α and -γ strongly inhibited SARS-CoV replication in Vero cells, while the single cytokines were much less effective. Conclusions:: This study provides evidence that SARS-CoV is able to induce in normal PBMC a coordinate induction of IFN-α and -γ gene expression. Virus replication is not necessary for IFN induction since efficient IFN expression could be obtained also by the cocultivation of normal PBMC with fixed SARS-CoV-infected cells. Concomitant activation of IFN-α and -γ gene expression by SARS-CoV in vivo may be relevant for the pathogenesis of the disease, both for the possible

AUTOMATIC COREGISTRATION FOR MULTIVIEW SAR IMAGES IN URBAN AREAS

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Y. Xiang

2017-09-01

Full Text Available Due to the high resolution property and the side-looking mechanism of SAR sensors, complex buildings structures make the registration of SAR images in urban areas becomes very hard. In order to solve the problem, an automatic and robust coregistration approach for multiview high resolution SAR images is proposed in the paper, which consists of three main modules. First, both the reference image and the sensed image are segmented into two parts, urban areas and nonurban areas. Urban areas caused by double or multiple scattering in a SAR image have a tendency to show higher local mean and local variance values compared with general homogeneous regions due to the complex structural information. Based on this criterion, building areas are extracted. After obtaining the target regions, L-shape structures are detected using the SAR phase congruency model and Hough transform. The double bounce scatterings formed by wall and ground are shown as strong L- or T-shapes, which are usually taken as the most reliable indicator for building detection. According to the assumption that buildings are rectangular and flat models, planimetric buildings are delineated using the L-shapes, then the reconstructed target areas are obtained. For the orignal areas and the reconstructed target areas, the SAR-SIFT matching algorithm is implemented. Finally, correct corresponding points are extracted by the fast sample consensus (FSC and the transformation model is also derived. The experimental results on a pair of multiview TerraSAR images with 1-m resolution show that the proposed approach gives a robust and precise registration performance, compared with the orignal SAR-SIFT method.

Blood donors--Serious adverse reactions (SAR) 2010-2014 EFS Châteauroux, France.

Science.gov (United States)

Riga, A; Sapey, T; Bacanu, M; Py, J-Y; Dehaut, F

2015-06-01

In 2013, the national French incidence of serious adverse reactions (SAR) was 155.7 per 100,000 donations and 82% of SAR were grade 2 (French classification of SAR related to blood donors) The purpose of our study was to describe the profile of blood donator candidate which had a SAR in our center. The study contains all the SAR superior to grade 1 occurred on the site EFS Châteauroux (site and mobile blood collection) from January 2010 to October 31, 2014. We analyzed 37 parameters from the e-fit files (e-site French blood vigilance) and In-log software. We identified 82 SAR for 72,553 blood donations (incidence: 113.02 SAR per 100,000 donations). Forty-one men and 41 women, middle age 39 years (18-66). Average height: 1.68 m (1.49-1.85); average weight: 68 kg (50-98); body mass index (kg/m(2)): 24,13(18.6-31.9). All donors were Caucasian and 30% unemployed. We found 74 vasovagal syncope (VVS), 5 hematomas, 2 arterial injuries and an adverse reaction to citrate. In 90%, the SAR was immediate and of grade 2 in 85% of cases. Thirty-seven percent of SAR were first donation in connection with whole blood in 87% of cases. Regarding the seniority of donors, the number of average donations (whole blood, plasma, platelets) was 16.5. An SAR determined the stop of blood donation in 65% of cases with nearly 80% stoppage if it was a first donation. Seventy-three percent of SAR as a VVS took place during blood collection or within 5 minutes following the end of the donation. Sixty-one percent were men. Forty-four percent of cases were a first donation and 83% occurred in mobile blood collection. Average age was 36 years. The result was a permanent stop of all type of donations in 76% of cases. Twenty-seven percent of SAR as a VVS took place beyond 5 minutes after the end of the donation. Seventy-five percent were women. Thirty percent of cases were a first donation and 95% of SAR occurred in mobile blood collection. Average age was 42 years. The result was a permanent stop of

The metastasis-associated Mts1(S100A4) protein could act as an angiogenic factor

DEFF Research Database (Denmark)

Ambartsumian, N; Klingelhöfer, Jörg; Grigorian, M

2001-01-01

The involvement of Mts1(S100A4), a small Ca(2+)-binding protein in tumor progression and metastasis had been demonstrated. However, the mechanism by which mts1(S100A4) promoted metastasis had not been identified. Here we demonstrated that Mts1(S100A4) had significant stimulatory effect on the ang...

POPDC1S201F causes muscular dystrophy and arrhythmia by affecting protein trafficking

Science.gov (United States)

Schindler, Roland F.R.; Scotton, Chiara; Zhang, Jianguo; Passarelli, Chiara; Ortiz-Bonnin, Beatriz; Simrick, Subreena; Schwerte, Thorsten; Poon, Kar-Lai; Fang, Mingyan; Rinné, Susanne; Froese, Alexander; Nikolaev, Viacheslav O.; Grunert, Christiane; Müller, Thomas; Tasca, Giorgio; Sarathchandra, Padmini; Drago, Fabrizio; Dallapiccola, Bruno; Rapezzi, Claudio; Arbustini, Eloisa; Di Raimo, Francesca Romana; Neri, Marcella; Selvatici, Rita; Gualandi, Francesca; Fattori, Fabiana; Pietrangelo, Antonello; Li, Wenyan; Jiang, Hui; Xu, Xun; Bertini, Enrico; Decher, Niels; Wang, Jun; Brand, Thomas; Ferlini, Alessandra

2015-01-01

The Popeye domain–containing 1 (POPDC1) gene encodes a plasma membrane–localized cAMP-binding protein that is abundantly expressed in striated muscle. In animal models, POPDC1 is an essential regulator of structure and function of cardiac and skeletal muscle; however, POPDC1 mutations have not been associated with human cardiac and muscular diseases. Here, we have described a homozygous missense variant (c.602C>T, p.S201F) in POPDC1, identified by whole-exome sequencing, in a family of 4 with cardiac arrhythmia and limb-girdle muscular dystrophy (LGMD). This allele was absent in known databases and segregated with the pathological phenotype in this family. We did not find the allele in a further screen of 104 patients with a similar phenotype, suggesting this mutation to be family specific. Compared with WT protein, POPDC1S201F displayed a 50% reduction in cAMP affinity, and in skeletal muscle from patients, both POPDC1S201F and WT POPDC2 displayed impaired membrane trafficking. Forced expression of POPDC1S201F in a murine cardiac muscle cell line (HL-1) increased hyperpolarization and upstroke velocity of the action potential. In zebrafish, expression of the homologous mutation (popdc1S191F) caused heart and skeletal muscle phenotypes that resembled those observed in patients. Our study therefore identifies POPDC1 as a disease gene causing a very rare autosomal recessive cardiac arrhythmia and LGMD, expanding the genetic causes of this heterogeneous group of inherited rare diseases. PMID:26642364

A Constellation of CubeSat InSAR Sensors for Rapid-Revisit Surface Deformation Studies

Science.gov (United States)

Wye, L.; Lee, S.; Yun, S. H.; Zebker, H. A.; Stock, J. D.; Wicks, C. W., Jr.; Doe, R.

2016-12-01

The 2007 NRC Decadal Survey for Earth Sciences highlights three major Earth surface deformation themes: 1) solid-earth hazards and dynamics; 2) human health and security; and 3) land-use change, ecosystem dynamics and biodiversity. Space-based interferometric synthetic aperture radar (InSAR) is a key change detection tool for addressing these themes. Here, we describe the mission and radar payload design for a constellation of S-band InSAR sensors specifically designed to provide the global, high temporal resolution, sub-cm level deformation accuracy needed to address some of the major Earth system goals. InSAR observations with high temporal resolution are needed to properly monitor certain nonlinearly time-varying features (e.g., unstable volcanoes, active fault lines, and heavily-used groundwater or hydrocarbon reservoirs). Good temporal coverage is also needed to reduce atmospheric artifacts by allowing multiple acquisitions to be averaged together, since each individual SAR measurement is corrupted by up to several cm of atmospheric noise. A single InSAR platform is limited in how often it can observe a given scene without sacrificing global spatial coverage. Multiple InSAR platforms provide the spatial-temporal flexibility required to maximize the science return. However, building and launching multiple InSAR platforms is cost-prohibitive for traditional satellites. SRI International (SRI) and our collaborators are working to exploit developments in nanosatellite technology, in particular the emergence of the CubeSat standard, to provide high-cadence InSAR capabilities in an affordable package. The CubeSat Imaging Radar for Earth Science (CIRES) subsystem, a prototype SAR elec­tronics package developed by SRI with support from a 2014 NASA ESTO ACT award, is specifically scaled to be a drop-in radar solution for resource-limited delivery systems like CubeSats and small airborne vehicles. Here, we present our mission concept and flow-down requirements for a

Model summary report for the safety assessment SFR 1 SAR-08

Energy Technology Data Exchange (ETDEWEB)

2008-03-15

This document is the model summary report for the safety assessment SFR 1 SAR-08. In the report, the quality assurance measures conducted for the assessment codes are presented together with the chosen methodology. In the safety assessment SFR1 SAR-08, a number of different computer codes are used. In order to better understand how these codes are related an Assessment Model Flowchart, AMF, has been produced within the project. From the AMF, it is possible to identify the different modelling tasks and consequently also the different computer codes used. A number of different computer codes are used in the assessment of which some are commercial while others are developed for assessment projects. QA requirements must on the one hand take this diversity into account and on the other hand be well defined. In the methodology section of the report the following requirements are defined: - It must be demonstrated that the code is suitable for its purpose. - It must be demonstrated that the code has been properly used. - It must be demonstrated that the code development process has followed appropriate procedures and that the code produces accurate results. Although the requirements are identical for all codes, the measures used to show that the requirements are fulfilled will be different for different codes (for instance due to the fact that for some software the source-code is not available for review). Subsequent to the methodology section, each assessment code is presented and it is shown how the requirements are met

Model summary report for the safety assessment SFR 1 SAR-08

International Nuclear Information System (INIS)

2008-03-01

This document is the model summary report for the safety assessment SFR 1 SAR-08. In the report, the quality assurance measures conducted for the assessment codes are presented together with the chosen methodology. In the safety assessment SFR1 SAR-08, a number of different computer codes are used. In order to better understand how these codes are related an Assessment Model Flowchart, AMF, has been produced within the project. From the AMF, it is possible to identify the different modelling tasks and consequently also the different computer codes used. A number of different computer codes are used in the assessment of which some are commercial while others are developed for assessment projects. QA requirements must on the one hand take this diversity into account and on the other hand be well defined. In the methodology section of the report the following requirements are defined: - It must be demonstrated that the code is suitable for its purpose. - It must be demonstrated that the code has been properly used. - It must be demonstrated that the code development process has followed appropriate procedures and that the code produces accurate results. Although the requirements are identical for all codes, the measures used to show that the requirements are fulfilled will be different for different codes (for instance due to the fact that for some software the source-code is not available for review). Subsequent to the methodology section, each assessment code is presented and it is shown how the requirements are met

TROUBLESHOOTING IN EXPRESSION AND PURIFICATION OF RECOMBINANT SEVERE ACUTE RESPIRATORY SYNDROME-ASSOCIATED CORONAVIRUS NUCLEOCAPSID PROTEIN IN Escherichia coli BL21

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Budiman Bela

2010-11-01

Full Text Available Considering importance of N protein for study of viral pathogenesis or development of immunodiagnostic assay, wereported effects of several conditions on purity and homogeneity of recombinant SARS-CoV N protein expressed in E.coli BL21. The SARS-CoV N gene was reverse transcribed and amplified by the reverse transcription-polymerase chainreaction (RT-PCR technique. The amplicons were cloned into pGEX-6P1 and followed by subcloning of the targetgene into pQE-80L. After inserting the recombinant plasmid (pQE80-N into E. coli, the recombinant protein (6 x Histag-N protein fusion was expressed by inducing the bacterial cells with 0.1-0.5 mM isopropyl-1-thio-Dgalactopyranoside(IPTG for 1-5 h. The protein recombinant were extracted from the bacterial cells by NTT buffercontaining 0-20 mM imidazol, and followed by Ni-NTA affinity resin purification. The results showed that induction ofE. coli BL21 with 0.2 mM IPTG for 4 h and followed with lysis of bacterial cells in NTT buffer containing 10 mMimidazol were optimal conditions to obtain the pure recombinant SARS-CoV N protein.

Empirical wind retrieval model based on SAR spectrum measurements

Science.gov (United States)

Panfilova, Maria; Karaev, Vladimir; Balandina, Galina; Kanevsky, Mikhail; Portabella, Marcos; Stoffelen, Ad

ambiguity from polarimetric SAR. A criterion based on the complex correlation coefficient between the VV and VH signals sign is applied to select the wind direction. An additional quality control on the wind speed value retrieved with the spectral method is applied. Here, we use the direction obtained with the spectral method and the backscattered signal for CMOD wind speed estimate. The algorithm described above may be refined by the use of numerous SAR data and wind measurements. In the present preliminary work the first results of SAR images combined with in situ data processing are presented. Our results are compared to the results obtained using previously developed models CMOD, C-2PO for VH polarization and statistical wind retrieval approaches [1]. Acknowledgments. This work is supported by the Russian Foundation of Basic Research (grants 13-05-00852-a). [1] M. Portabella, A. Stoffelen, J. A. Johannessen, Toward an optimal inversion method for synthetic aperture radar wind retrieval, Journal of geophysical research, V. 107, N C8, 2002

A NEW SAR CLASSIFICATION SCHEME FOR SEDIMENTS ON INTERTIDAL FLATS BASED ON MULTI-FREQUENCY POLARIMETRIC SAR IMAGERY

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W. Wang

2017-11-01

Full Text Available We present a new classification scheme for muddy and sandy sediments on exposed intertidal flats, which is based on synthetic aperture radar (SAR data, and use ALOS-2 (L-band, Radarsat-2 (C-band and TerraSAR-X (X-band fully polarimetric SAR imagery to demonstrate its effectiveness. Four test sites on the German North Sea coast were chosen, which represent typical surface compositions of different sediments, vegetation, and habitats, and of which a large amount of SAR is used for our analyses. Both Freeman-Durden and Cloude-Pottier polarimetric decomposition are utilized, and an additional descriptor called Double-Bounce Eigenvalue Relative Difference (DERD is introduced into the feature sets instead of the original polarimetric intensity channels. The classification is conducted following Random Forest theory, and the results are verified using ground truth data from field campaigns and an existing classification based on optical imagery. In addition, the use of Kennaugh elements for classification purposes is demonstrated using both fully and dual-polarization multi-frequency and multi-temporal SAR data. Our results show that the proposed classification scheme can be applied for the discrimination of muddy and sandy sediments using L-, C-, and X-band SAR images, while SAR imagery acquired at short wavelengths (C- and X-band can also be used to detect more detailed features such as bivalve beds on intertidal flats.

Caldera deformation in Kyushu island (SW Japan) through InSAR data

Science.gov (United States)

Nobile, Adriano; Pepe, Susi; Ruch, Joel; Trippanera, Daniele; Casu, Francesco; Castaldo, Raffaele; Tizzani, Pietro; Aoki, Yosuke; Geshi, Nobuo; Acocella, Valerio; Sansosti, Eugenio; Siniscalchi, Valeria; Borgstrom, Sven; Zoffoli, Simona

2014-05-01

Calderas are the surface expression of a long-lived and complex magmatic system, often hosting a shallower hydrothermal system. Most monitored calderas have experienced some forms of unrest, even though only a part of these unrest episodes has culminated in an eruption. This study focuses on surface deformation analysis using InSAR from 1993 to 2013 at two large active calderas, Aso and Aira, located on Kyushu Island (Japan). Despite being closely monitored, our knowledge on the deformation history of both calderas with regard to their activity is poor. ERS, ENVISAT, ALOS and COSMO-SkyMed SAR images have been processed to obtain mean velocity deformation maps and time series through the SBAS technique. Results are then inverted using the simulated annealing technique to evaluate the deformation source parameters. Aso caldera hosts several vents in its central portion. One of these, the Naka Dake crater is the only currently active and erupted 7 times since 1993. From January 1996 to November 1998, after the important 1994 - 1995 eruption, we observed a subsidence of ~1.2 cm/yr at the center of the caldera. Analytical models suggest a deflating source (with various possible shapes) at 5-7 km of depth, implying a magmatic nature for the deformation. Inversion results are consistent with available seismic and GPS data. Aira Caldera hosts the Sakurajima volcano along its southern rim, with a persistent eruptive activity since 1950s. From June 2006 to March 2011, we observed a broad uplift of ~1.5 cm along most of the caldera rim. Analytical inversion of both the entire dataset and a cross-correlated dataset suggests a deformation source at the caldera center, at a depth of 5-9 km (depending on the source shape), implying a magmatic nature of the deformation. Inversion results are in agreement with GPS and InSAR data inversions for other periods of activity. This research has been partially performed within the frame of Italian Space Agency (ASI) and Japan Aerospace

Proteomic Analysis of Responsive Proteins Induced in Japanese Birch Plantlet Treated with Salicylic Acid

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Hiromu Suzuki

2014-07-01

Full Text Available The present study was performed to unravel the mechanisms of systemic acquired resistance (SAR establishment and resistance signaling pathways against the canker-rot fungus (Inonotus obliquus strain IO-U1 infection in Japanese birch plantlet No.8. Modulation of protein-profile induced by salicylic acid (SA-administration was analyzed, and SA-responsive proteins were identified. In total, 5 specifically expressed, 3 significantly increased, and 3 significantly decreased protein spots were identified using liquid chromatography/tandem mass spectrometry (LC/MS/MS and the sequence tag method. These proteins were malate dehydrogenase, succinate dehydrogenase, phosphoglycerate kinase, diaminopimalate decarboxylase, arginase, chorismate mutase, cyclophilin, aminopeptidase, and unknown function proteins. These proteins are considered to be involved in SAR-establishment mechanisms in the Japanese birch plantlet No 8.

Protein S-glutathionylation induced by hypoxia increases hypoxia-inducible factor-1α in human colon cancer cells.

Science.gov (United States)

Jeon, Daun; Park, Heon Joo; Kim, Hong Seok

2018-01-01

Hypoxia is a common characteristic of many types of solid tumors. Intratumoral hypoxia selects for tumor cells that survive in a low oxygen environment, undergo epithelial-mesenchymal transition, are more motile and invasive, and show gene expression changes driven by hypoxia-inducible factor-1α (HIF-1α) activation. Therefore, targeting HIF-1α is an attractive strategy for disrupting multiple pathways crucial for tumor growth. In the present study, we demonstrated that hypoxia increases the S-glutathionylation of HIF-1α and its protein levels in colon cancer cells. This effect is significantly prevented by decreasing oxidized glutathione as well as glutathione depletion, indicating that S-glutathionylation and the formation of protein-glutathione mixed disulfides is related to HIF-1α protein levels. Moreover, colon cancer cells expressing glutaredoxin 1 are resistant to inducing HIF-1α and expressing hypoxia-responsive genes under hypoxic conditions. Therefore, S-glutathionylation of HIF-1α induced by tumor hypoxia may be a novel therapeutic target for the development of new drugs. Copyright © 2017 Elsevier Inc. All rights reserved.

Low cost realization of space-borne synthectic aperture radar - MicroSAR

Science.gov (United States)

Carter, D.; Hall, C.

associated with implementing spaceborne SAR systems is an aspect of work that has been addressed over the past decade by the main S RA system expert companies. As the experimental systems have been realized and understood, so there has been a move to transfer these systems from the research and scientific domains into operational and commercial implementations. The end of the cold war, combined with the ever increasingly competitive telecommunications market, have assisted in driving down the launch costs, a significant cost element in any space system budget. To take maximum benefit from this it is still necessary to be able to make light weight satellites, in the region of 450 Kgs or less. Typically SAR satellites have been in the neighbourhood of 1.5 to 2.5 Tonnes. In order to achieve the low cost systems, not only the satellite mass needs to be tackled but also several other factors:- Design complexity- Production costs- Performance- Calibration and verification A novel approach has been established to address all of these factors. Developments are already in progress to prove the approach and that the low costs are achievable. This is called MicroSAR. This paper starts with an overview of the market status. A description of the MicroSAR system, its developments, calibration philosophy, trade-offs carried out, its performance envelope and an outline of the steps taken to achieve a low cost Synthetic Aperture Radar system are then presented.

SAR Image Classification Based on Its Texture Features

Institute of Scientific and Technical Information of China (English)