Pains and Gains from China's Experiences with Emerging Epidemics: From SARS to H7N9

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Wei, Pengfei; Cai, Zelang; Hua, Jinwen; Yu, Weijia; Chen, Jiajie; Kang, Kang; Qiu, Congling; Ye, Lanlan; Hu, Jiayun; Ji, Kunmei

2016-01-01

Over the recent decades, China experienced several emerging virus outbreaks including those caused by the severe acute respiratory syndrome- (SARS-) coronavirus (Cov), H5N1 virus, and H7N9 virus. The SARS tragedy revealed faults in China’s infectious disease prevention system, propelling the Chinese government to enact reforms that enabled better combating of the subsequent H1N1 and H7N9 avian flu epidemics. The system is buttressed by three fundamental, mutually reinforcing components: (1) e...

Severe acute respiratory syndrome (SARS)

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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). ...

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

Dynamic changes of serum SARS-Coronavirus IgG, pulmonary function and radiography in patients recovering from SARS after hospital discharge

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Chen Liangan

2005-01-01

Full Text Available Abstract Objective The intent of this study was to examine the recovery of individuals who had been hospitalized for severe acute respiratory syndrome (SARS in the year following their discharge from the hospital. Parameters studied included serum levels of SARS coronavirus (SARS-CoV IgG antibody, tests of lung function, and imaging data to evaluate changes in lung fibrosis. In addition, we explored the incidence of femoral head necrosis in some of the individuals recovering from SARS. Methods The subjects of this study were 383 clinically diagnosed SARS patients in Beijing, China. They were tested regularly for serum levels of SARS-CoV IgG antibody and lung function and were given chest X-rays and/or high resolution computerized tomography (HRCT examinations at the Chinese PLA General Hospital during the 12 months that followed their release from the hospital. Those individuals who were found to have lung diffusion abnormities (transfer coefficient for carbon monoxide [DLCO] Findings Of all the subjects, 81.2% (311 of 383 patients tested positive for serum SARS-CoV IgG. Of those testing positive, 27.3% (85 of 311 patients were suffering from lung diffusion abnormities (DLCO Interpretation The lack of sero-positive SARS-CoV in some individuals suggests that there may have been some misdiagnosed cases among the subjects included in this study. Of those testing positive, the serum levels of SARS-CoV IgG antibody decreased significantly during the 12 months after hospital discharge. Additionally, we found that the individuals who had lung fibrosis showed some spontaneous recovery. Finally, some of the subjects developed femoral head necrosis.

SARS-Coronavirus ancestor's foot-prints in South-East Asian bat colonies and the refuge theory.

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Gouilh, Meriadeg Ar; Puechmaille, Sébastien J; Gonzalez, Jean-Paul; Teeling, Emma; Kittayapong, Pattamaporn; Manuguerra, Jean-Claude

2011-10-01

One of the great challenges in the ecology of infectious diseases is to understand what drives the emergence of new pathogens including the relationship between viruses and their hosts. In the case of the emergence of SevereAcute Respiratory Syndrome Coronavirus (SARS-CoV), several studies have shown coronavirus diversity in bats as well as the existence of SARS-CoV infection in apparently healthy bats, suggesting that bats may be a crucial host in the genesis of this disease. To elucidate the biogeographic origin of SARS-CoV and investigate the role that bats played in its emergence, we amplified coronavirus sequences from bat species captured throughout Thailand and assessed the phylogenetic relationships to each other and to other published coronavirus sequences. To this end, RdRp sequence of Coronavirinae was targeted by RT-PCR in non-invasive samples from bats collected in Thailand. Two new coronaviruses were detected in two bat species: one Betacoronavirus in Hipposideros larvatus and one Alphacoronavirus in Hipposiderosarmiger. Interestingly, these viruses from South-East Asia are related to those previously detected in Africa (Betacoronavirus-b) or in Europe (Alphacoronavirus & Betacoronavirus-b). These findings illuminate the origin and the evolutionary history of the SARS-CoV group found in bats by pushing forward the hypothesis of a Betacoronavirus spill-over from Hipposideridae to Rhinolophidae and then from Rhinolophidae to civets and Human. All reported Betacoronaviruses-b (SARS-CoV group) of Hipposideridae and Rhinolophidae respectively cluster in two groups despite their broad geographic distribution and the sympatry of their hosts, which is in favor of an ancient and genetically independent evolution of Betacoronavirus-b clusters in these families. Moreover, despite its probable pathogenicity, we found that a Betacoronavirus-b can persistently infect a medium-sized hipposiderid bat colony. These findings illustrate the importance of the host

Adaptive evolution of the spike gene of SARS coronavirus: changes in positively selected sites in different epidemic groups

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He Shao-Heng

2006-10-01

Full Text Available Abstract Background It is believed that animal-to-human transmission of severe acute respiratory syndrome (SARS coronavirus (CoV is the cause of the SARS outbreak worldwide. The spike (S protein is one of the best characterized proteins of SARS-CoV, which plays a key role in SARS-CoV overcoming species barrier and accomplishing interspecies transmission from animals to humans, suggesting that it may be the major target of selective pressure. However, the process of adaptive evolution of S protein and the exact positively selected sites associated with this process remain unknown. Results By investigating the adaptive evolution of S protein, we identified twelve amino acid sites (75, 239, 244, 311, 479, 609, 613, 743, 765, 778, 1148, and 1163 in the S protein under positive selective pressure. Based on phylogenetic tree and epidemiological investigation, SARS outbreak was divided into three epidemic groups: 02–04 interspecies, 03-early-mid, and 03-late epidemic groups in the present study. Positive selection was detected in the first two groups, which represent the course of SARS-CoV interspecies transmission and of viral adaptation to human host, respectively. In contrast, purifying selection was detected in 03-late group. These indicate that S protein experiences variable positive selective pressures before reaching stabilization. A total of 25 sites in 02–04 interspecies epidemic group and 16 sites in 03-early-mid epidemic group were identified under positive selection. The identified sites were different between these two groups except for site 239, which suggests that positively selected sites are changeable between groups. Moreover, it was showed that a larger proportion (24% of positively selected sites was located in receptor-binding domain (RBD than in heptad repeat (HR1-HR2 region in 02–04 interspecies epidemic group (p = 0.0208, and a greater percentage (25% of these sites occurred in HR1–HR2 region than in RBD in 03-early

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

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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.

Ribonucleocapsid Formation of SARS-COV Through Molecular Action of the N-Terminal Domain of N Protein

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Saikatendu, K.S.; Joseph, J.S.; Subramanian, V.; Neuman, B.W.; Buchmeier, M.J.; Stevens, R.C.; Kuhn, P.; /Scripps Res. Inst.

2007-07-12

Conserved amongst all coronaviruses are four structural proteins, the matrix (M), small envelope (E) and spike (S) that are embedded in the viral membrane and the nucleocapsid phosphoprotein (N), which exists in a ribonucleoprotein complex in their lumen. The N terminal domain of coronaviral N proteins (N-NTD) provides a scaffold for RNA binding while the C-terminal domain (N-CTD) mainly acts as oligomerization modules during assembly. The C-terminus of N protein anchors it to the viral membrane by associating with M protein. We characterized the structures of N-NTD from severe acute respiratory syndrome coronavirus (SARS-CoV) in two crystal forms, at 1.17A (monoclinic) and 1.85 A (cubic) respectively, solved by molecular replacement using the homologous avian infectious bronchitis virus (IBV) structure. Flexible loops in the solution structure of SARS-CoV N-NTD are now shown to be well ordered around the beta-sheet core. The functionally important positively charged beta-hairpin protrudes out of the core and is oriented similar to that in the IBV N-NTD and is involved in crystal packing in the monoclinic form. In the cubic form, the monomers form trimeric units that stack in a helical array. Comparison of crystal packing of SARS-CoV and IBV N-NTDs suggest a common mode of RNA recognition, but probably associate differently in vivo during the formation of the ribonucleoprotein complex. Electrostatic potential distribution on the surface of homology models of related coronaviral N-NTDs hints that they employ different modes of both RNA recognition as well as oligomeric assembly, perhaps explaining why their nucleocapsids have different morphologies.

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

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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).

A mouse-adapted SARS-coronavirus causes disease and mortality in BALB/c mice.

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Anjeanette Roberts

2007-01-01

Full Text Available No single animal model for severe acute respiratory syndrome (SARS reproduces all aspects of the human disease. Young inbred mice support SARS-coronavirus (SARS-CoV replication in the respiratory tract and are available in sufficient numbers for statistical evaluation. They are relatively inexpensive and easily accessible, but their use in SARS research is limited because they do not develop illness following infection. Older (12- to 14-mo-old BALB/c mice develop clinical illness and pneumonitis, but they can be hard to procure, and immune senescence complicates pathogenesis studies. We adapted the SARS-CoV (Urbani strain by serial passage in the respiratory tract of young BALB/c mice. Fifteen passages resulted in a virus (MA15 that is lethal for mice following intranasal inoculation. Lethality is preceded by rapid and high titer viral replication in lungs, viremia, and dissemination of virus to extrapulmonary sites accompanied by lymphopenia, neutrophilia, and pathological changes in the lungs. Abundant viral antigen is extensively distributed in bronchial epithelial cells and alveolar pneumocytes, and necrotic cellular debris is present in airways and alveoli, with only mild and focal pneumonitis. These observations suggest that mice infected with MA15 die from an overwhelming viral infection with extensive, virally mediated destruction of pneumocytes and ciliated epithelial cells. The MA15 virus has six coding mutations associated with adaptation and increased virulence; when introduced into a recombinant SARS-CoV, these mutations result in a highly virulent and lethal virus (rMA15, duplicating the phenotype of the biologically derived MA15 virus. Intranasal inoculation with MA15 reproduces many aspects of disease seen in severe human cases of SARS. The availability of the MA15 virus will enhance the use of the mouse model for SARS because infection with MA15 causes morbidity, mortality, and pulmonary pathology. This virus will be of value as

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

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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.

Group 2 coronaviruses prevent immediate early interferon induction by protection of viral RNA from host cell recognition

International Nuclear Information System (INIS)

Versteeg, Gijs A.; Bredenbeek, Peter J.; Worm, Sjoerd H.E. van den; Spaan, Willy J.M.

2007-01-01

Many viruses encode antagonists to prevent interferon (IFN) induction. Infection of fibroblasts with the murine hepatitis coronavirus (MHV) and SARS-coronavirus (SARS-CoV) did not result in nuclear translocation of interferon-regulatory factor 3 (IRF3), a key transcription factor involved in IFN induction, and induction of IFN mRNA transcription. Furthermore, MHV and SARS-CoV infection could not prevent IFN induction by poly (I:C) or Sendai virus, suggesting that these CoVs do not inactivate IRF3-mediated transcription regulation, but apparently prevent detection of replicative RNA by cellular sensory molecules. Our data indicate that shielding of viral RNA to host cell sensors might be the main general mechanism for coronaviruses to prevent IFN induction

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.

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

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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.

Evidence supporting a zoonotic origin of human coronavirus strain NL63.

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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.

Imaging in severe acute respiratory syndrome (SARS)

International Nuclear Information System (INIS)

Antonio, G.E.; Wong, K.T.; Chu, W.C.W.; Hui, D.S.C.; Cheng, F.W.T.; Yuen, E.H.Y.; Chung, S.S.C.; Fok, T.F.; Sung, J.J.Y.; Ahuja, A.T.

2003-01-01

Severe acute respiratory syndrome (SARS) is a highly infectious disease caused by a novel coronavirus, and has become pandemic within a short period of time. Imaging plays an important role in the diagnosis, management and follow-up of patients with SARS. The current status of imaging in SARS is presented in this review

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.

Long-term persistence of robust antibody and cytotoxic T cell responses in recovered patients infected with SARS coronavirus.

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Taisheng Li

2006-12-01

Full Text Available Most of the individuals infected with SARS coronavirus (SARS-CoV spontaneously recovered without clinical intervention. However, the immunological correlates associated with patients' recovery are currently unknown. In this report, we have sequentially monitored 30 recovered patients over a two-year period to characterize temporal changes in SARS-CoV-specific antibody responses as well as cytotoxic T cell (CTL responses. We have found persistence of robust antibody and CTL responses in all of the study subjects throughout the study period, with a moderate decline one year after the onset of symptoms. We have also identified two potential major CTL epitopes in N proteins based on ELISPOT analysis of pooled peptides. However, despite the potent immune responses and clinical recovery, peripheral lymphocyte counts in the recovered patients have not yet been restored to normal levels. In summary, our study has, for the first time, characterized the temporal and dynamic changes of humoral and CTL responses in the natural history of SARS-recovered individuals, and strongly supports the notion that high and sustainable levels of immune responses correlate strongly with the disease outcome. Our findings have direct implications for future design and development of effective therapeutic agents and vaccines against SARS-CoV infection.

Dendritic Cell Targeted Chitosan Nanoparticles for Nasal DNA Immunization against SARS CoV Nucleocapsid Protein

OpenAIRE

Raghuwanshi, Dharmendra; Mishra, Vivek; Das, Dipankar; Kaur, Kamaljit; Suresh, Mavanur R.

2012-01-01

This work investigates the formulation and in vivo efficacy of dendritic cell (DC) targeted plasmid DNA loaded biotinylated chitosan nanoparticles for nasal immunization against nucleocapsid (N) protein of severe acute respiratory syndrome coronavirus (SARS-CoV) as antigen. The induction of antigen-specific mucosal and systemic immune response at the site of virus entry is a major challenge for vaccine design. Here, we designed a strategy for non-invasive receptor mediated gene delivery to na...

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

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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.

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.

Cloaked similarity between HIV-1 and SARS-CoV suggests an anti-SARS strategy

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Kliger Yossef

2003-09-01

Full Text Available Abstract Background Severe acute respiratory syndrome (SARS is a febrile respiratory illness. The disease has been etiologically linked to a novel coronavirus that has been named the SARS-associated coronavirus (SARS-CoV, whose genome was recently sequenced. Since it is a member of the Coronaviridae, its spike protein (S2 is believed to play a central role in viral entry by facilitating fusion between the viral and host cell membranes. The protein responsible for viral-induced membrane fusion of HIV-1 (gp41 differs in length, and has no sequence homology with S2. Results Sequence analysis reveals that the two viral proteins share the sequence motifs that construct their active conformation. These include (1 an N-terminal leucine/isoleucine zipper-like sequence, and (2 a C-terminal heptad repeat located upstream of (3 an aromatic residue-rich region juxtaposed to the (4 transmembrane segment. Conclusions This study points to a similar mode of action for the two viral proteins, suggesting that anti-viral strategy that targets the viral-induced membrane fusion step can be adopted from HIV-1 to SARS-CoV. Recently the FDA approved Enfuvirtide, a synthetic peptide corresponding to the C-terminal heptad repeat of HIV-1 gp41, as an anti-AIDS agent. Enfuvirtide and C34, another anti HIV-1 peptide, exert their inhibitory activity by binding to a leucine/isoleucine zipper-like sequence in gp41, thus inhibiting a conformational change of gp41 required for its activation. We suggest that peptides corresponding to the C-terminal heptad repeat of the S2 protein may serve as inhibitors for SARS-CoV entry.

SARS-CoV related Betacoronavirus and diverse Alphacoronavirus members found in western old-world.

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Ar Gouilh, Meriadeg; Puechmaille, Sébastien J; Diancourt, Laure; Vandenbogaert, Mathias; Serra-Cobo, Jordi; Lopez Roïg, Marc; Brown, Paul; Moutou, François; Caro, Valérie; Vabret, Astrid; Manuguerra, Jean-Claude

2018-04-01

The emergence of SARS-CoV and MERS-CoV, triggered the discovery of a high diversity of coronaviruses in bats. Studies from Europe have shown that coronaviruses circulate in bats in France but this reflects only a fraction of the whole diversity. In the current study the diversity of coronaviruses circulating in western Europe was extensively explored. Ten alphacoronaviruses in eleven bat species belonging to the Miniopteridae, Vespertilionidae and Rhinolophidae families and, a SARS-CoV-related Betacoronavirus in Rhinolophus ferrumequinum were identified. The diversity and prevalence of bat coronaviruses presently reported from western Europe is much higher than previously described and includes a SARS-CoV sister group. This diversity demonstrates the dynamic evolution and circulation of coronaviruses in this species. That said, the identified coronaviruses were consistently associated with a particular bat species or genus, and these relationships were maintained no matter the geographic location. The observed phylogenetic grouping of coronaviruses from the same species in Europe and Asia, emphasizes the role of host/pathogen coevolution in this group. Copyright © 2018 Elsevier Inc. All rights reserved.

Inhibition of cytokine gene expression and induction of chemokine genes in non-lymphatic cells infected with SARS coronavirus

Directory of Open Access Journals (Sweden)

Weber Friedemann

2006-03-01

Full Text Available Abstract Background SARS coronavirus (SARS-CoV is the etiologic agent of the severe acute respiratory syndrome. SARS-CoV mainly infects tissues of non-lymphatic origin, and the cytokine profile of those cells can determine the course of disease. Here, we investigated the cytokine response of two human non-lymphatic cell lines, Caco-2 and HEK 293, which are fully permissive for SARS-CoV. Results A comparison with established cytokine-inducing viruses revealed that SARS-CoV only weakly triggered a cytokine response. In particular, SARS-CoV did not activate significant transcription of the interferons IFN-α, IFN-β, IFN-λ1, IFN-λ2/3, as well as of the interferon-induced antiviral genes ISG56 and MxA, the chemokine RANTES and the interleukine IL-6. Interestingly, however, SARS-CoV strongly induced the chemokines IP-10 and IL-8 in the colon carcinoma cell line Caco-2, but not in the embryonic kidney cell line 293. Conclusion Our data indicate that SARS-CoV suppresses the antiviral cytokine system of non-immune cells to a large extent, thus buying time for dissemination in the host. However, synthesis of IP-10 and IL-8, which are established markers for acute-stage SARS, escapes the virus-induced silencing at least in some cell types. Therefore, the progressive infiltration of immune cells into the infected lungs observed in SARS patients could be due to the production of these chemokines by the infected tissue cells.

Bats and SARS

Centers for Disease Control (CDC) Podcasts

Bats are a natural reservoir for emerging viruses, among them henipaviruses and rabies virus variants. Dr. Nina Marano, Chief, Geographic Medicine and Health Promotion Branch, Division of Global Migration and Quarantine, CDC, explains connection between horseshoe bats and SARS coronavirus transmission.

Characterization of a novel coronavirus associated with severe acute respiratory syndrome

NARCIS (Netherlands)

P.A. Rota (Paul); M.S. Oberste (Steven); S.S. Monroe (Stephan); W.A. Nix (Allan); R. Campagnoli (Ray); J.P. Icenogle (Joseph); S. Penaranda; B. Bankamp (Bettina); K. Maher (Kaija); M.H. Chen (Min-hsin); S. Tong (Suxiong); A. Tamin (Azaibi); L. Lowe (Luis); M. Frace (Michael); J.L. DeRisi (Joseph); Q. Chen (Qi); D. Wang (David); D.D. Erdman (Dean); T.C. Peret (Teresa); C. Burns (Cara); T.G. Ksiazek (Thomas); P.E. Rollin (Pierre); A. Sanchez (Berenguer); S. Liffick (Stephanie); B. Holloway (Brian); J. Limor (Josef); K. McCaustland (Karen); M. Olsen-Rasmussen (Mellissa); S. Gunther; A.D.M.E. Osterhaus (Albert); C. Drosten (Christian); M.A. Pallansch (Mark); L.J. Anderson (Larry); W.J. Belline; R.A.M. Fouchier (Ron)

2003-01-01

textabstractIn March 2003, a novel coronavirus (SARS-CoV) was discovered in association with cases of severe acute respiratory syndrome (SARS). The sequence of the complete genome of SARS-CoV was determined, and the initial characterization of the viral genome is presented in this report. The

Simultaneous Genomic Detection of Multiple Enteric Bacterial and Viral Pathogens, Including Sars-CoV and RVFV

National Research Council Canada - National Science Library

Payne, S; Peters, C. J. (Clarence James), 1940; Makino, S; Oliver, K; Weiss, C; Kornguth, S; Carruthers, L; Chin, R

2004-01-01

...) associated with the SARS-associated coronavirus (SARS-CoV) and Rift Valley Fever Virus (RVFV) has been developed. This system is based upon the Luminex xMAP" System, a multiplexed assay platform that combines high sample throughput...

The potential of targeted antibody prophylaxis in SARS outbreak control: a mathematic analysis

NARCIS (Netherlands)

Bogaards, Johannes Antonie; Putter, Hein; Jan Weverling, Gerrit; ter Meulen, Jan; Goudsmit, Jaap

2007-01-01

BACKGROUND: Severe acute respiratory syndrome (SARS) coronavirus-like viruses continue to circulate in animal reservoirs. If new mutants of SARS coronavirus do initiate another epidemic, administration of prophylactic antibodies to risk groups may supplement the stringent isolation procedures that

Identification of a new human coronavirus

NARCIS (Netherlands)

van der Hoek, Lia; Pyrc, Krzysztof; Jebbink, Maarten F.; Vermeulen-Oost, Wilma; Berkhout, Ron J. M.; Wolthers, Katja C.; Wertheim-van Dillen, Pauline M. E.; Kaandorp, Jos; Spaargaren, Joke; Berkhout, Ben

2004-01-01

Three human coronaviruses are known to exist: human coronavirus 229E (HCoV-229E), HCoV-OC43 and severe acute respiratory syndrome (SARS)-associated coronavirus (SARS-CoV). Here we report the identification of a fourth human coronavirus, HCoV-NL63, using a new method of virus discovery. The virus was

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

Receptor-binding domain of SARS-CoV spike protein induces highly potent neutralizing antibodies: implication for developing subunit vaccine

International Nuclear Information System (INIS)

He Yuxian; Zhou Yusen; Liu Shuwen; Kou Zhihua; Li Wenhui; Farzan, Michael; Jiang Shibo

2004-01-01

The spike (S) protein of severe acute respiratory syndrome (SARS) coronavirus (CoV), a type I transmembrane envelope glycoprotein, consists of S1 and S2 domains responsible for virus binding and fusion, respectively. The S1 contains a receptor-binding domain (RBD) that can specifically bind to angiotensin-converting enzyme 2 (ACE2), the receptor on target cells. Here we show that a recombinant fusion protein (designated RBD-Fc) containing 193-amino acid RBD (residues 318-510) and a human IgG1 Fc fragment can induce highly potent antibody responses in the immunized rabbits. The antibodies recognized RBD on S1 domain and completely inhibited SARS-CoV infection at a serum dilution of 1:10,240. Rabbit antisera effectively blocked binding of S1, which contains RBD, to ACE2. This suggests that RBD can induce highly potent neutralizing antibody responses and has potential to be developed as an effective and safe subunit vaccine for prevention of SARS

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

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}.

A patient with asymptomatic severe acute respiratory syndrome (SARS) and antigenemia from the 2003-2004 community outbreak of SARS in Guangzhou, China.

Science.gov (United States)

Che, Xiao-yan; Di, Biao; Zhao, Guo-ping; Wang, Ya-di; Qiu, Li-wen; Hao, Wei; Wang, Ming; Qin, Peng-zhe; Liu, Yu-fei; Chan, Kwok-hong; Cheng, Vincent C C; Yuen, Kwok-yung

2006-07-01

An asymptomatic case of severe acute respiratory syndrome (SARS) occurred early in 2004, during a community outbreak of SARS in Guangzhou, China. This was the first time that a case of asymptomatic SARS was noted in an individual with antigenemia and seroconversion. The asymptomatic case patient and the second index case patient with SARS in the 2003-2004 outbreak both worked in the same restaurant, where they served palm civets, which were found to carry SARS-associated coronaviruses. Epidemiological information and laboratory findings suggested that the findings for the patient with asymptomatic infection, together with the findings from previously reported serological analyses of handlers of wild animals and the 4 index case patients from the 2004 community outbreak, reflected a likely intermediate phase of animal-to-human transmission of infection, rather than a case of human-to-human transmission. This intermediate phase may be a critical stage for virus evolution and disease prevention.

Bats and SARS

Centers for Disease Control (CDC) Podcasts

2006-11-08

Bats are a natural reservoir for emerging viruses, among them henipaviruses and rabies virus variants. Dr. Nina Marano, Chief, Geographic Medicine and Health Promotion Branch, Division of Global Migration and Quarantine, CDC, explains connection between horseshoe bats and SARS coronavirus transmission.  Created: 11/8/2006 by Emerging Infectious Diseases.   Date Released: 11/17/2006.

Residue analysis of a CTL epitope of SARS-CoV spike protein by IFN-gamma production and bioinformatics prediction

Directory of Open Access Journals (Sweden)

Huang Jun

2012-09-01

Full Text Available Abstract Background Severe acute respiratory syndrome (SARS is an emerging infectious disease caused by the novel coronavirus SARS-CoV. The T cell epitopes of the SARS CoV spike protein are well known, but no systematic evaluation of the functional and structural roles of each residue has been reported for these antigenic epitopes. Analysis of the functional importance of side-chains by mutational study may exaggerate the effect by imposing a structural disturbance or an unusual steric, electrostatic or hydrophobic interaction. Results We demonstrated that N50 could induce significant IFN-gamma response from SARS-CoV S DNA immunized mice splenocytes by the means of ELISA, ELISPOT and FACS. Moreover, S366-374 was predicted to be an optimal epitope by bioinformatics tools: ANN, SMM, ARB and BIMAS, and confirmed by IFN-gamma response induced by a series of S358-374-derived peptides. Furthermore, each of S366-374 was replaced by alanine (A, lysine (K or aspartic acid (D, respectively. ANN was used to estimate the binding affinity of single S366-374 mutants to H-2 Kd. Y367 and L374 were predicated to possess the most important role in peptide binding. Additionally, these one residue mutated peptides were synthesized, and IFN-gamma production induced by G368, V369, A371, T372 and K373 mutated S366-374 were decreased obviously. Conclusions We demonstrated that S366-374 is an optimal H-2 Kd CTL epitope in the SARS CoV S protein. Moreover, Y367, S370, and L374 are anchors in the epitope, while C366, G368, V369, A371, T372, and K373 may directly interact with TCR on the surface of CD8-T cells.

Comparison between SARS CoV and MERS CoV Using Apriori Algorithm, Decision Tree, SVM

Directory of Open Access Journals (Sweden)

Jang Seongpil

2016-01-01

Full Text Available MERS (Middle East Respiratory Syndrome is a worldwide disease these days. The number of infected people is 1038(08/03/2015 in Saudi Arabia and 186(08/03/2015 in South Korea. MERS is all over the world including Europe and the fatality rate is 38.8%, East Asia and the Middle East. The MERS is also known as a cousin of SARS (Severe Acute Respiratory Syndrome because both diseases show similar symptoms such as high fever and difficulty in breathing. This is why we compared MERS with SARS. We used data of the spike glycoprotein from NCBI. As a way of analyzing the protein, apriori algorithm, decision tree, SVM were used, and particularly SVM was iterated by normal, polynomial, and sigmoid. The result came out that the MERS and the SARS are alike but also different in some way.

SARS – virus jumps species

Indian Academy of Sciences (India)

SARS – virus jumps species. Coronavirus reshuffles genes; Rotteir et al, Rotterdam showed the virus to jump from cats to mouse cells after single gene mutation ? Human disease due to virus jumping from wild or domestic animals; Present favourite animal - the cat; - edible or domestic.

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

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

Structure of a SARS coronavirus-derived peptide bound to the human major histocompatibility complex class I molecule HLA-B*1501

DEFF Research Database (Denmark)

Røder, Gustav; Kristensen, Ole; Kastrup, Jette S

2008-01-01

, the crystal structure of HLA-B*1501 in complex with a SARS coronavirus-derived nonapeptide (VQQESSFVM) has been determined at high resolution (1.87 A). The peptide is deeply anchored in the B and F pockets, but with the Glu4 residue pointing away from the floor in the peptide-binding groove, making...

Molecular mechanisms of severe acute respiratory syndrome (SARS

Directory of Open Access Journals (Sweden)

Zabel Peter

2005-01-01

Full Text Available Abstract Severe acute respiratory syndrome (SARS is a new infectious disease caused by a novel coronavirus that leads to deleterious pulmonary pathological features. Due to its high morbidity and mortality and widespread occurrence, SARS has evolved as an important respiratory disease which may be encountered everywhere in the world. The virus was identified as the causative agent of SARS due to the efforts of a WHO-led laboratory network. The potential mutability of the SARS-CoV genome may lead to new SARS outbreaks and several regions of the viral genomes open reading frames have been identified which may contribute to the severe virulence of the virus. With regard to the pathogenesis of SARS, several mechanisms involving both direct effects on target cells and indirect effects via the immune system may exist. Vaccination would offer the most attractive approach to prevent new epidemics of SARS, but the development of vaccines is difficult due to missing data on the role of immune system-virus interactions and the potential mutability of the virus. Even in a situation of no new infections, SARS remains a major health hazard, as new epidemics may arise. Therefore, further experimental and clinical research is required to control the disease.

[SARS: a new emergency in the world health].

Science.gov (United States)

Calza, Leonardo; Manfredi, Roberto; Verucchi, Gabriella; Chiodo, Francesco

2003-01-01

The Severe Acute Respiratory Syndrome (SARS) is a new life-threatening respiratory disease which has its origins in Guangdong province, China, where the earliest known cases were identified in November 2002. Since then, probable cases of SARS have been reported in 30 countries and the current cumulative number of cases is 8,240 with 745 deaths and a global fatality rate of 9%. The most frequently involved areas include China, Hong Kong, Singapore, Canada, Vietnam and Philippines. Most cases of SARS to date have occurred in young adults and this disease appears to spread most commonly by close person-to-person contact, involving exposure to infectious droplets and body fluids. This transmission pattern generally involves household members, health care workers and international travellers, while a large and sudden cluster of almost simultaneous cases in an housing estate of Hong Kong has raised the possibility of transmission from an environmental source. The most common presenting symptoms are fever, malaise, non-productive cough and dyspnea, associated with pulmonary interstitial infiltrates on chest radiography. A novel coronavirus is associated with this outbreak, and the laboratory evidences indicate that this virus has an etiologic role in SARS, but the role of other concurrent viral agents (such as metapneumovirus) identified in these patients requires further investigation.

Palmitoylation of SARS-CoV S protein is necessary for partitioning into detergent-resistant membranes and cell-cell fusion but not interaction with M protein

International Nuclear Information System (INIS)

McBride, Corrin E.; Machamer, Carolyn E.

2010-01-01

Coronaviruses are enveloped RNA viruses that generally cause mild disease in humans. However, the recently emerged coronavirus that caused severe acute respiratory syndrome (SARS-CoV) is the most pathogenic human coronavirus discovered to date. The SARS-CoV spike (S) protein mediates virus entry by binding cellular receptors and inducing fusion between the viral envelope and the host cell membrane. Coronavirus S proteins are palmitoylated, which may affect function. Here, we created a non-palmitoylated SARS-CoV S protein by mutating all nine cytoplasmic cysteine residues. Palmitoylation of SARS-CoV S was required for partitioning into detergent-resistant membranes and for cell-cell fusion. Surprisingly, however, palmitoylation of S was not required for interaction with SARS-CoV M protein. This contrasts with the requirement for palmitoylation of mouse hepatitis virus S protein for interaction with M protein and may point to important differences in assembly and infectivity of these two coronaviruses.

Bioinformatics analysis of SARS coronavirus genome polymorphism

Directory of Open Access Journals (Sweden)

Pavlović-Lažetić Gordana M

2004-05-01

Full Text Available Abstract Background We have compared 38 isolates of the SARS-CoV complete genome. The main goal was twofold: first, to analyze and compare nucleotide sequences and to identify positions of single nucleotide polymorphism (SNP, insertions and deletions, and second, to group them according to sequence similarity, eventually pointing to phylogeny of SARS-CoV isolates. The comparison is based on genome polymorphism such as insertions or deletions and the number and positions of SNPs. Results The nucleotide structure of all 38 isolates is presented. Based on insertions and deletions and dissimilarity due to SNPs, the dataset of all the isolates has been qualitatively classified into three groups each having their own subgroups. These are the A-group with "regular" isolates (no insertions / deletions except for 5' and 3' ends, the B-group of isolates with "long insertions", and the C-group of isolates with "many individual" insertions and deletions. The isolate with the smallest average number of SNPs, compared to other isolates, has been identified (TWH. The density distribution of SNPs, insertions and deletions for each group or subgroup, as well as cumulatively for all the isolates is also presented, along with the gene map for TWH. Since individual SNPs may have occurred at random, positions corresponding to multiple SNPs (occurring in two or more isolates are identified and presented. This result revises some previous results of a similar type. Amino acid changes caused by multiple SNPs are also identified (for the annotated sequences, as well as presupposed amino acid changes for non-annotated ones. Exact SNP positions for the isolates in each group or subgroup are presented. Finally, a phylogenetic tree for the SARS-CoV isolates has been produced using the CLUSTALW program, showing high compatibility with former qualitative classification. Conclusions The comparative study of SARS-CoV isolates provides essential information for genome

Pains and Gains from China’s Experiences with Emerging Epidemics: From SARS to H7N9

Directory of Open Access Journals (Sweden)

Pengfei Wei

2016-01-01

Full Text Available Over the recent decades, China experienced several emerging virus outbreaks including those caused by the severe acute respiratory syndrome- (SARS- coronavirus (Cov, H5N1 virus, and H7N9 virus. The SARS tragedy revealed faults in China’s infectious disease prevention system, propelling the Chinese government to enact reforms that enabled better combating of the subsequent H1N1 and H7N9 avian flu epidemics. The system is buttressed by three fundamental, mutually reinforcing components: (1 enduring government administration reforms, including legislation establishing a unified public health emergency management system; (2 prioritized funding for biotechnology and biomedicine industrialization, especially in the areas of pathogen identification, drug production, and the development of vaccines and diagnostics; and (3 increasing investment for public health and establishment of a rapid-response infectious diseases prevention and control system. China is now using its hard-gained experience to support the fight against Ebola in Africa and the Middle East Respiratory Syndrome in its own country.

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

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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.

Genetic analysis of the SARS-coronavirus spike glycoprotein functional domains involved in cell-surface expression and cell-to-cell fusion

International Nuclear Information System (INIS)

Petit, Chad M.; Melancon, Jeffrey M.; Chouljenko, Vladimir N.; Colgrove, Robin; Farzan, Michael; Knipe, David M.; Kousoulas, K.G.

2005-01-01

The SARS-coronavirus (SARS-CoV) is the etiological agent of severe acute respiratory syndrome (SARS). The SARS-CoV spike (S) glycoprotein mediates membrane fusion events during virus entry and virus-induced cell-to-cell fusion. To delineate functional domains of the SARS-CoV S glycoprotein, single point mutations, cluster-to-lysine and cluster-to-alanine mutations, as well as carboxyl-terminal truncations were investigated in transient expression experiments. Mutagenesis of either the coiled-coil domain of the S glycoprotein amino terminal heptad repeat, the predicted fusion peptide, or an adjacent but distinct region, severely compromised S-mediated cell-to-cell fusion, while intracellular transport and cell-surface expression were not adversely affected. Surprisingly, a carboxyl-terminal truncation of 17 amino acids substantially increased S glycoprotein-mediated cell-to-cell fusion suggesting that the terminal 17 amino acids regulated the S fusogenic properties. In contrast, truncation of 26 or 39 amino acids eliminating either one or both of the two endodomain cysteine-rich motifs, respectively, inhibited cell fusion in comparison to the wild-type S. The 17 and 26 amino-acid deletions did not adversely affect S cell-surface expression, while the 39 amino-acid truncation inhibited S cell-surface expression suggesting that the membrane proximal cysteine-rich motif plays an essential role in S cell-surface expression. Mutagenesis of the acidic amino-acid cluster in the carboxyl terminus of the S glycoprotein as well as modification of a predicted phosphorylation site within the acidic cluster revealed that this amino-acid motif may play a functional role in the retention of S at cell surfaces. This genetic analysis reveals that the SARS-CoV S glycoprotein contains extracellular domains that regulate cell fusion as well as distinct endodomains that function in intracellular transport, cell-surface expression, and cell fusion

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

About Coronavirus

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Yeast based small molecule screen for inhibitors of SARS-CoV.

Directory of Open Access Journals (Sweden)

Matthew Frieman

Full Text Available Severe acute respiratory coronavirus (SARS-CoV emerged in 2002, resulting in roughly 8000 cases worldwide and 10% mortality. The animal reservoirs for SARS-CoV precursors still exist and the likelihood of future outbreaks in the human population is high. The SARS-CoV papain-like protease (PLP is an attractive target for pharmaceutical development because it is essential for virus replication and is conserved among human coronaviruses. A yeast-based assay was established for PLP activity that relies on the ability of PLP to induce a pronounced slow-growth phenotype when expressed in S. cerevisiae. Induction of the slow-growth phenotype was shown to take place over a 60-hour time course, providing the basis for conducting a screen for small molecules that restore growth by inhibiting the function of PLP. Five chemical suppressors of the slow-growth phenotype were identified from the 2000 member NIH Diversity Set library. One of these, NSC158362, potently inhibited SARS-CoV replication in cell culture without toxic effects on cells, and it specifically inhibited SARS-CoV replication but not influenza virus replication. The effect of NSC158362 on PLP protease, deubiquitinase and anti-interferon activities was investigated but the compound did not alter these activities. Another suppressor, NSC158011, demonstrated the ability to inhibit PLP protease activity in a cell-based assay. The identification of these inhibitors demonstrated a strong functional connection between the PLP-based yeast assay, the inhibitory compounds, and SARS-CoV biology. Furthermore the data with NSC158362 suggest a novel mechanism for inhibition of SARS-CoV replication that may involve an unknown activity of PLP, or alternatively a direct effect on a cellular target that modifies or bypasses PLP function in yeast and mammalian cells.

Mutation of Asn28 Disrupts the Dimerization and Enzymatic Activity of SARS 3CL

Energy Technology Data Exchange (ETDEWEB)

Barrila, J.; Gabelli, S; Bacha, U; Amzel, M; Freire, E

2010-01-01

Coronaviruses are responsible for a significant proportion of annual respiratory and enteric infections in humans and other mammals. The most prominent of these viruses is the severe acute respiratory syndrome coronavirus (SARS-CoV) which causes acute respiratory and gastrointestinal infection in humans. The coronavirus main protease, 3CL{sup pro}, is a key target for broad-spectrum antiviral development because of its critical role in viral maturation and high degree of structural conservation among coronaviruses. Dimerization is an indispensable requirement for the function of SARS 3CL{sup pro} and is regulated through mechanisms involving both direct and long-range interactions in the enzyme. While many of the binding interactions at the dimerization interface have been extensively studied, those that are important for long-range control are not well-understood. Characterization of these dimerization mechanisms is important for the structure-based design of new treatments targeting coronavirus-based infections. Here we report that Asn28, a residue 11 {angstrom} from the closest residue in the opposing monomer, is essential for the enzymatic activity and dimerization of SARS 3CLpro. Mutation of this residue to alanine almost completely inactivates the enzyme and results in a 19.2-fold decrease in the dimerization K{sub d}. The crystallographic structure of the N28A mutant determined at 2.35 {angstrom} resolution reveals the critical role of Asn28 in maintaining the structural integrity of the active site and in orienting key residues involved in binding at the dimer interface and substrate catalysis. These findings provide deeper insight into complex mechanisms regulating the activity and dimerization of SARS 3CL{sup pro}.

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

Palmitoylation of the cysteine-rich endodomain of the SARS-coronavirus spike glycoprotein is important for spike-mediated cell fusion

International Nuclear Information System (INIS)

Petit, Chad M.; Chouljenko, Vladimir N.; Iyer, Arun; Colgrove, Robin; Farzan, Michael; Knipe, David M.; Kousoulas, K.G.

2007-01-01

The SARS-coronavirus (SARS-CoV) is the etiological agent of the severe acute respiratory syndrome (SARS). The SARS-CoV spike (S) glycoprotein mediates membrane fusion events during virus entry and virus-induced cell-to-cell fusion. The cytoplasmic portion of the S glycoprotein contains four cysteine-rich amino acid clusters. Individual cysteine clusters were altered via cysteine-to-alanine amino acid replacement and the modified S glycoproteins were tested for their transport to cell-surfaces and ability to cause cell fusion in transient transfection assays. Mutagenesis of the cysteine cluster I, located immediately proximal to the predicted transmembrane, domain did not appreciably reduce cell-surface expression, although S-mediated cell fusion was reduced by more than 50% in comparison to the wild-type S. Similarly, mutagenesis of the cysteine cluster II located adjacent to cluster I reduced S-mediated cell fusion by more than 60% compared to the wild-type S, while cell-surface expression was reduced by less than 20%. Mutagenesis of cysteine clusters III and IV did not appreciably affect S cell-surface expression or S-mediated cell fusion. The wild-type S was palmitoylated as evidenced by the efficient incorporation of 3 H-palmitic acid in wild-type S molecules. S glycoprotein palmitoylation was significantly reduced for mutant glycoproteins having cluster I and II cysteine changes, but was largely unaffected for cysteine cluster III and IV mutants. These results show that the S cytoplasmic domain is palmitoylated and that palmitoylation of the membrane proximal cysteine clusters I and II may be important for S-mediated cell fusion

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...

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

Directory of Open Access Journals (Sweden)

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.

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

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

The nucleocapsid proteins of mouse hepatitis virus and severe acute respiratory syndrome coronavirus share the same IFN-β antagonizing mechanism: attenuation of PACT-mediated RIG-I/ MDA5 activation.

Science.gov (United States)

Ding, Zhen; Fang, Liurong; Yuan, Shuangling; Zhao, Ling; Wang, Xunlei; Long, Siwen; Wang, Mohan; Wang, Dang; Foda, Mohamed Frahat; Xiao, Shaobo

2017-07-25

Coronaviruses (CoVs) are a huge threat to both humans and animals and have evolved elaborate mechanisms to antagonize interferons (IFNs). Nucleocapsid (N) protein is the most abundant viral protein in CoV-infected cells, and has been identified as an innate immunity antagonist in several CoVs, including mouse hepatitis virus (MHV) and severe acute respiratory syndrome (SARS)-CoV. However, the underlying molecular mechanism(s) remain unclear. In this study, we found that MHV N protein inhibited Sendai virus and poly(I:C)-induced IFN-β production by targeting a molecule upstream of retinoic acid-induced gene I (RIG-I) and melanoma differentiation gene 5 (MDA5). Further studies showed that both MHV and SARS-CoV N proteins directly interacted with protein activator of protein kinase R (PACT), a cellular dsRNA-binding protein that can bind to RIG-I and MDA5 to activate IFN production. The N-PACT interaction sequestered the association of PACT and RIG-I/MDA5, which in turn inhibited IFN-β production. However, the N proteins from porcine epidemic diarrhea virus (PEDV) and porcine reproductive and respiratory syndrome virus (PRRSV), which are also classified in the order Nidovirales, did not interact and counteract with PACT. Taken together, our present study confirms that both MHV and SARS-CoV N proteins can perturb the function of cellular PACT to circumvent the innate antiviral response. However, this strategy does not appear to be used by all CoVs N proteins.

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....

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.

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.

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

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.

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.

Evidence for an ancestral association of human coronavirus 229E with bats

Czech Academy of Sciences Publication Activity Database

Corman, V. M.; Baldwin, H. J.; Tateno, A. F.; Zerbinati, R. M.; Annan, A.; Owusu, M.; Nkrumah, E. E.; Maganga, G. D.; Oppong, S.; Adu-Sarkodie, Y.; Vallo, Peter; da Silva Filho, L. V. R. F.; Leroy, E. M.; Thiel, V.; van der Hoek, L.; Poon, L. L. M.; Tschapka, M.; Drosten, C.; Drexler, J. F.

2015-01-01

Roč. 89, č. 23 (2015), s. 11858-11870 ISSN 0022-538X Institutional support: RVO:68081766 Keywords : respiratory syndrome coronavirus * SARS-coronavirus * genomic characterization * dromedary camels * clinical impact * virus * children * protein * spike * classification Subject RIV: FN - Epidemiology, Contagious Diseases ; Clinical Immunology Impact factor: 4.606, year: 2015

Genetic diversity of coronaviruses in bats in Lao PDR and Cambodia.

Science.gov (United States)

Lacroix, Audrey; Duong, Veasna; Hul, Vibol; San, Sorn; Davun, Hull; Omaliss, Keo; Chea, Sokha; Hassanin, Alexandre; Theppangna, Watthana; Silithammavong, Soubanh; Khammavong, Kongsy; Singhalath, Sinpakone; Greatorex, Zoe; Fine, Amanda E; Goldstein, Tracey; Olson, Sarah; Joly, Damien O; Keatts, Lucy; Dussart, Philippe; Afelt, Aneta; Frutos, Roger; Buchy, Philippe

2017-03-01

South-East Asia is a hot spot for emerging zoonotic diseases, and bats have been recognized as hosts for a large number of zoonotic viruses such as Severe Acute Respiratory Syndrome (SARS), responsible for acute respiratory syndrome outbreaks. Thus, it is important to expand our knowledge of the presence of viruses in bats which could represent a risk to humans. Coronaviruses (CoVs) have been reported in bat species from Thailand, China, Indonesia, Taiwan and the Philippines. However no such work was conducted in Cambodia or Lao PDR. Between 2010 and 2013, 1965 bats were therefore sampled at interfaces with human populations in these two countries. They were tested for the presence of coronavirus by consensus reverse transcription-PCR assay. A total of 93 samples (4.7%) from 17 genera of bats tested positive. Sequence analysis revealed the presence of potentially 37 and 56 coronavirus belonging to alpha-coronavirus (αCoV) and beta-CoV (βCoV), respectively. The βCoVs group is known to include some coronaviruses highly pathogenic to human, such as SARS-CoV and MERS-CoV. All coronavirus sequences generated from frugivorous bats (family Pteropodidae) (n=55) clustered with other bat βCoVs of lineage D, whereas one coronavirus from Pipistrellus coromandra fell in the lineage C of βCoVs which also includes the MERS-CoV. αCoVs were all detected in various genera of insectivorous bats and clustered with diverse bat αCoV sequences previously published. A closely related strain of PEDV, responsible for severe diarrhea in pigs (PEDV-CoV), was detected in 2 Myotis bats. We highlighted the presence and the high diversity of coronaviruses circulating in bats from Cambodia and Lao PDR. Three new bat genera and species were newly identified as host of coronaviruses, namely Macroglossus sp., Megaerops niphanae and Myotis horsfieldii. Copyright © 2016 Elsevier B.V. All rights reserved.

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...

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.

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.

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

A noncovalent class of papain-like protease/deubiquitinase inhibitors blocks SARS virus replication

Energy Technology Data Exchange (ETDEWEB)

Ratia, Kiira; Pegan, Scott; Takayama, Jun; Sleeman, Katrina; Coughlin, Melissa; Baliji, Surendranath; Chaudhuri, Rima; Fu, Wentao; Prabhakar, Bellur S.; Johnson, Michael E.; Baker, Susan C.; Ghosh, Arun K.; Mesecar, Andrew D. (Loyola); (Purdue); (UIC)

2008-10-27

We report the discovery and optimization of a potent inhibitor against the papain-like protease (PLpro) from the coronavirus that causes severe acute respiratory syndrome (SARS-CoV). This unique protease is not only responsible for processing the viral polyprotein into its functional units but is also capable of cleaving ubiquitin and ISG15 conjugates and plays a significant role in helping SARS-CoV evade the human immune system. We screened a structurally diverse library of 50,080 compounds for inhibitors of PLpro and discovered a noncovalent lead inhibitor with an IC{sub 50} value of 20 {mu}M, which was improved to 600 nM via synthetic optimization. The resulting compound, GRL0617, inhibited SARS-CoV viral replication in Vero E6 cells with an EC{sub 50} of 15 {mu}M and had no associated cytotoxicity. The X-ray structure of PLpro in complex with GRL0617 indicates that the compound has a unique mode of inhibition whereby it binds within the S4-S3 subsites of the enzyme and induces a loop closure that shuts down catalysis at the active site. These findings provide proof-of-principle that PLpro is a viable target for development of antivirals directed against SARS-CoV, and that potent noncovalent cysteine protease inhibitors can be developed with specificity directed toward pathogenic deubiquitinating enzymes without inhibiting host DUBs.

Detection of Coronaviruses in Bats of Various Species in Italy

Directory of Open Access Journals (Sweden)

Maria B. Boniotti

2013-10-01

Full Text Available Bats are natural reservoirs for many mammalian coronaviruses, which have received renewed interest after the discovery of the severe acute respiratory syndrome (SARS and the Middle East respiratory syndrome (MERS CoV in humans. This study describes the identification and molecular characterization of alphacoronaviruses and betacoronaviruses in bats in Italy, from 2010 to 2012. Sixty-nine faecal samples and 126 carcasses were tested using pan-coronavirus RT-PCR. Coronavirus RNAs were detected in seven faecal samples and nine carcasses. A phylogenetic analysis of RNA-dependent RNA polymerase sequence fragments aided in identifying two alphacoronaviruses from Kuhl’s pipistrelle (Pipistrellus kuhlii, three clade 2b betacoronaviruses from lesser horseshoe bats (Rhinolophus hipposideros, and 10 clade 2c betacoronaviruses from Kuhl’s pipistrelle, common noctule (Nyctalus noctula, and Savi’s pipistrelle (Hypsugo savii. This study fills a substantive gap in the knowledge on bat-CoV ecology in Italy, and extends the current knowledge on clade 2c betacoronaviruses with new sequences obtained from bats that have not been previously described as hosts of these viruses.

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.

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

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.

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.

A molecular arms race between host innate antiviral response and emerging human coronaviruses.

Science.gov (United States)

Wong, Lok-Yin Roy; Lui, Pak-Yin; Jin, Dong-Yan

2016-02-01

Coronaviruses have been closely related with mankind for thousands of years. Community-acquired human coronaviruses have long been recognized to cause common cold. However, zoonotic coronaviruses are now becoming more a global concern with the discovery of highly pathogenic severe acute respiratory syndrome (SARS) and Middle East respiratory syndrome (MERS) coronaviruses causing severe respiratory diseases. Infections by these emerging human coronaviruses are characterized by less robust interferon production. Treatment of patients with recombinant interferon regimen promises beneficial outcomes, suggesting that compromised interferon expression might contribute at least partially to the severity of disease. The mechanisms by which coronaviruses evade host innate antiviral response are under intense investigations. This review focuses on the fierce arms race between host innate antiviral immunity and emerging human coronaviruses. Particularly, the host pathogen recognition receptors and the signal transduction pathways to mount an effective antiviral response against SARS and MERS coronavirus infection are discussed. On the other hand, the counter-measures evolved by SARS and MERS coronaviruses to circumvent host defense are also dissected. With a better understanding of the dynamic interaction between host and coronaviruses, it is hoped that insights on the pathogenesis of newly-identified highly pathogenic human coronaviruses and new strategies in antiviral development can be derived.

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

Infection control for SARS in a tertiary neonatal centre.

Science.gov (United States)

Ng, P C; So, K W; Leung, T F; Cheng, F W T; Lyon, D J; Wong, W; Cheung, K L; Fung, K S C; Lee, C H; Li, A M; Hon, K L E; Li, C K; Fok, T F

2003-09-01

The Severe Acute Respiratory Syndrome (SARS) is a newly discovered infectious disease caused by a novel coronavirus, which can readily spread in the healthcare setting. A recent community outbreak in Hong Kong infected a significant number of pregnant women who subsequently required emergency caesarean section for deteriorating maternal condition and respiratory failure. As no neonatal clinician has any experience in looking after these high risk infants, stringent infection control measures for prevention of cross infection between patients and staff are important to safeguard the wellbeing of the work force and to avoid nosocomial spread of SARS within the neonatal unit. This article describes the infection control and patient triage policy of the neonatal unit at the Prince of Wales Hospital, Hong Kong. We hope this information is useful in helping other units to formulate their own infection control plans according to their own unit configuration and clinical needs.

Development of Broad-Spectrum Halomethyl Ketone Inhibitors Against Coronavirus Main Protease 3CL(pro)

Energy Technology Data Exchange (ETDEWEB)

Bacha,U.; Barilla, J.; Gabelli, S.; Kiso, Y.; Amzel, L.; Freire, E.

2008-01-01

Coronaviruses comprise a large group of RNA viruses with diverse host specificity. The emergence of highly pathogenic strains like the SARS coronavirus (SARS-CoV), and the discovery of two new coronaviruses, NL-63 and HKU1, corroborates the high rate of mutation and recombination that have enabled them to cross species barriers and infect novel hosts. For that reason, the development of broad-spectrum antivirals that are effective against several members of this family is highly desirable. This goal can be accomplished by designing inhibitors against a target, such as the main protease 3CLpro (Mpro), which is highly conserved among all coronaviruses. Here 3CLpro derived from the SARS-CoV was used as the primary target to identify a new class of inhibitors containing a halomethyl ketone warhead. The compounds are highly potent against SARS 3CLpro with Ki's as low as 300 nm. The crystal structure of the complex of one of the compounds with 3CLpro indicates that this inhibitor forms a thioether linkage between the halomethyl carbon of the warhead and the catalytic Cys 145. Furthermore, Structure Activity Relationship (SAR) studies of these compounds have led to the identification of a pharmacophore that accurately defines the essential molecular features required for the high affinity.

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 ...

Mosaic Evolution of the Severe Acute Respiratory Syndrome Coronavirus

Science.gov (United States)

Stavrinides, John; Guttman, David S.

2004-01-01

Severe acute respiratory syndrome (SARS) is a deadly form of pneumonia caused by a novel coronavirus, a viral family responsible for mild respiratory tract infections in a wide variety of animals including humans, pigs, cows, mice, cats, and birds. Analyses to date have been unable to identify the precise origin of the SARS coronavirus. We used Bayesian, neighbor-joining, and split decomposition phylogenetic techniques on the SARS virus replicase, surface spike, matrix, and nucleocapsid proteins to reveal the evolutionary origin of this recently emerging infectious agent. The analyses support a mammalian-like origin for the replicase protein, an avian-like origin for the matrix and nucleocapsid proteins, and a mammalian-avian mosaic origin for the host-determining spike protein. A bootscan recombination analysis of the spike gene revealed high nucleotide identity between the SARS virus and a feline infectious peritonitis virus throughout the gene, except for a 200- base-pair region of high identity to an avian sequence. These data support the phylogenetic analyses and suggest a possible past recombination event between mammalian-like and avian-like parent viruses. This event occurred near a region that has been implicated to be the human receptor binding site and may have been directly responsible for the switch of host of the SARS coronavirus from animals to humans. PMID:14671089

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.

Functional genomics highlights differential induction of antiviral pathways in the lungs of SARS-CoV-infected macaques.

Directory of Open Access Journals (Sweden)

Anna de Lang

2007-08-01

Full Text Available The pathogenesis of severe acute respiratory syndrome coronavirus (SARS-CoV is likely mediated by disproportional immune responses and the ability of the virus to circumvent innate immunity. Using functional genomics, we analyzed early host responses to SARS-CoV infection in the lungs of adolescent cynomolgus macaques (Macaca fascicularis that show lung pathology similar to that observed in human adults with SARS. Analysis of gene signatures revealed induction of a strong innate immune response characterized by the stimulation of various cytokine and chemokine genes, including interleukin (IL-6, IL-8, and IP-10, which corresponds to the host response seen in acute respiratory distress syndrome. As opposed to many in vitro experiments, SARS-CoV induced a wide range of type I interferons (IFNs and nuclear translocation of phosphorylated signal transducer and activator of transcription 1 in the lungs of macaques. Using immunohistochemistry, we revealed that these antiviral signaling pathways were differentially regulated in distinctive subsets of cells. Our studies emphasize that the induction of early IFN signaling may be critical to confer protection against SARS-CoV infection and highlight the strength of combining functional genomics with immunohistochemistry to further unravel the pathogenesis of SARS.

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.

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

Directory of Open Access Journals (Sweden)

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.

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.

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.

Nano(Q)SAR: Challenges, pitfalls and perspectives.

Science.gov (United States)

Tantra, Ratna; Oksel, Ceyda; Puzyn, Tomasz; Wang, Jian; Robinson, Kenneth N; Wang, Xue Z; Ma, Cai Y; Wilkins, Terry

2015-01-01

Regulation for nanomaterials is urgently needed, and the drive to adopt an intelligent testing strategy is evident. Such a strategy will not only provide economic benefits but will also reduce moral and ethical concerns arising from animal testing. For regulatory purposes, such an approach is promoted by REACH, particularly the use of quantitative structure-activity relationships [(Q)SAR] as a tool for the categorisation of compounds according to their physicochemical and toxicological properties. In addition to compounds, (Q)SAR has also been applied to nanomaterials in the form of nano(Q)SAR. Although (Q)SAR in chemicals is well established, nano(Q)SAR is still in early stages of development and its successful uptake is far from reality. This article aims to identify some of the pitfalls and challenges associated with nano-(Q)SARs in relation to the categorisation of nanomaterials. Our findings show clear gaps in the research framework that must be addressed if we are to have reliable predictions from such models. Three major barriers were identified: the need to improve quality of experimental data in which the models are developed from, the need to have practical guidelines for the development of the nano(Q)SAR models and the need to standardise and harmonise activities for the purpose of regulation. Of these three, the first, i.e. the need to improve data quality requires immediate attention, as it underpins activities associated with the latter two. It should be noted that the usefulness of data in the context of nano-(Q)SAR modelling is not only about the quantity of data but also about the quality, consistency and accessibility of those data.

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

Directory of Open Access Journals (Sweden)

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.

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.

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.

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...

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

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).

SAR Study of Mobile Phones as a function of Antenna Q

DEFF Research Database (Denmark)

Bahramzy, Pevand; Svendsen, Simon; Jagielski, Ole

2015-01-01

density associated with high-Q antennas. The higher energy stored in the electric and magnetic near-field components can result in higher SAR. Hence, SAR study of high-Q antennas is necessary which, if not addressed, might not comply with the SAR safety guidelines. In this paper, SAR as a function...

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.

Infrastructure monitoring with spaceborne SAR sensors

CERN Document Server

ANGHEL, ANDREI; CACOVEANU, REMUS

2017-01-01

This book presents a novel non-intrusive infrastructure monitoring technique based on the detection and tracking of scattering centers in spaceborne SAR images. The methodology essentially consists of refocusing each available SAR image on an imposed 3D point cloud associated to the envisaged infrastructure element and identifying the reliable scatterers to be monitored by means of four dimensional (4D) tomography. The methodology described in this book provides a new perspective on infrastructure monitoring with spaceborne SAR images, is based on a standalone processing chain, and brings innovative technical aspects relative to conventional approaches. The book is intended primarily for professionals and researchers working in the area of critical infrastructure monitoring by radar remote sensing.

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.

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

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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

Dynamic innate immune responses of human bronchial epithelial cells to severe acute respiratory syndrome-associated coronavirus infection.

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Tomoki Yoshikawa

2010-01-01

Full Text Available Human lung epithelial cells are likely among the first targets to encounter invading severe acute respiratory syndrome-associated coronavirus (SARS-CoV. Not only can these cells support the growth of SARS-CoV infection, but they are also capable of secreting inflammatory cytokines to initiate and, eventually, aggravate host innate inflammatory responses, causing detrimental immune-mediated pathology within the lungs. Thus, a comprehensive evaluation of the complex epithelial signaling to SARS-CoV is crucial for paving the way to better understand SARS pathogenesis. Based on microarray-based functional genomics, we report here the global gene response of 2B4 cells, a cloned bronchial epithelial cell line derived from Calu-3 cells. Specifically, we found a temporal and spatial activation of nuclear factor (NFkappaB, activator protein (AP-1, and interferon regulatory factor (IRF-3/7 in infected 2B4 cells at 12-, 24-, and 48-hrs post infection (p.i., resulting in the activation of many antiviral genes, including interferon (IFN-beta, -lambdas, inflammatory mediators, and many IFN-stimulated genes (ISGs. We also showed, for the first time, that IFN-beta and IFN-lambdas were capable of exerting previously unrecognized, non-redundant, and complementary abilities to limit SARS-CoV replication, even though their expression could not be detected in infected 2B4 bronchial epithelial cells until 48 hrs p.i. Collectively, our results highlight the mechanics of the sequential events of antiviral signaling pathway/s triggered by SARS-CoV in bronchial epithelial cells and identify novel cellular targets for future studies, aiming at advancing strategies against SARS.

Infidelity of SARS-CoV Nsp14-exonuclease mutant virus replication is revealed by complete genome sequencing.

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Lance D Eckerle

2010-05-01

Full Text Available Most RNA viruses lack the mechanisms to recognize and correct mutations that arise during genome replication, resulting in quasispecies diversity that is required for pathogenesis and adaptation. However, it is not known how viruses encoding large viral RNA genomes such as the Coronaviridae (26 to 32 kb balance the requirements for genome stability and quasispecies diversity. Further, the limits of replication infidelity during replication of large RNA genomes and how decreased fidelity impacts virus fitness over time are not known. Our previous work demonstrated that genetic inactivation of the coronavirus exoribonuclease (ExoN in nonstructural protein 14 (nsp14 of murine hepatitis virus results in a 15-fold decrease in replication fidelity. However, it is not known whether nsp14-ExoN is required for replication fidelity of all coronaviruses, nor the impact of decreased fidelity on genome diversity and fitness during replication and passage. We report here the engineering and recovery of nsp14-ExoN mutant viruses of severe acute respiratory syndrome coronavirus (SARS-CoV that have stable growth defects and demonstrate a 21-fold increase in mutation frequency during replication in culture. Analysis of complete genome sequences from SARS-ExoN mutant viral clones revealed unique mutation sets in every genome examined from the same round of replication and a total of 100 unique mutations across the genome. Using novel bioinformatic tools and deep sequencing across the full-length genome following 10 population passages in vitro, we demonstrate retention of ExoN mutations and continued increased diversity and mutational load compared to wild-type SARS-CoV. The results define a novel genetic and bioinformatics model for introduction and identification of multi-allelic mutations in replication competent viruses that will be powerful tools for testing the effects of decreased fidelity and increased quasispecies diversity on viral replication

Coronavirus Infection and Diversity in Bats in the Australasian Region.

Science.gov (United States)

Smith, C S; de Jong, C E; Meers, J; Henning, J; Wang, L- F; Field, H E

2016-03-01

Following the SARS outbreak, extensive surveillance was undertaken globally to detect and identify coronavirus diversity in bats. This study sought to identify the diversity and prevalence of coronaviruses in bats in the Australasian region. We identified four different genotypes of coronavirus, three of which (an alphacoronavirus and two betacoronaviruses) are potentially new species, having less than 90% nucleotide sequence identity with the most closely related described viruses. We did not detect any SARS-like betacoronaviruses, despite targeting rhinolophid bats, the putative natural host taxa. Our findings support the virus-host co-evolution hypothesis, with the detection of Miniopterus bat coronavirus HKU8 (previously reported in Miniopterus species in China, Hong Kong and Bulgaria) in Australian Miniopterus species. Similarly, we detected a novel betacoronavirus genotype from Pteropus alecto which is most closely related to Bat coronavirus HKU9 identified in other pteropodid bats in China, Kenya and the Philippines. We also detected possible cross-species transmission of bat coronaviruses, and the apparent enteric tropism of these viruses. Thus, our findings are consistent with a scenario wherein the current diversity and host specificity of coronaviruses reflects co-evolution with the occasional host shift.

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.

Human Coronaviruses: Insights into Environmental Resistance and Its Influence on the Development of New Antiseptic Strategies

Science.gov (United States)

Geller, Chloé; Varbanov, Mihayl; Duval, Raphaël E.

2012-01-01

The Coronaviridae family, an enveloped RNA virus family, and, more particularly, human coronaviruses (HCoV), were historically known to be responsible for a large portion of common colds and other upper respiratory tract infections. HCoV are now known to be involved in more serious respiratory diseases, i.e. bronchitis, bronchiolitis or pneumonia, especially in young children and neonates, elderly people and immunosuppressed patients. They have also been involved in nosocomial viral infections. In 2002–2003, the outbreak of severe acute respiratory syndrome (SARS), due to a newly discovered coronavirus, the SARS-associated coronavirus (SARS-CoV); led to a new awareness of the medical importance of the Coronaviridae family. This pathogen, responsible for an emerging disease in humans, with high risk of fatal outcome; underline the pressing need for new approaches to the management of the infection, and primarily to its prevention. Another interesting feature of coronaviruses is their potential environmental resistance, despite the accepted fragility of enveloped viruses. Indeed, several studies have described the ability of HCoVs (i.e. HCoV 229E, HCoV OC43 (also known as betacoronavirus 1), NL63, HKU1 or SARS-CoV) to survive in different environmental conditions (e.g. temperature and humidity), on different supports found in hospital settings such as aluminum, sterile sponges or latex surgical gloves or in biological fluids. Finally, taking into account the persisting lack of specific antiviral treatments (there is, in fact, no specific treatment available to fight coronaviruses infections), the Coronaviridae specificities (i.e. pathogenicity, potential environmental resistance) make them a challenging model for the development of efficient means of prevention, as an adapted antisepsis-disinfection, to prevent the environmental spread of such infective agents. This review will summarize current knowledge on the capacity of human coronaviruses to survive in the

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...

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

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.

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

The persistent prevalence and evolution of cross-family recombinant coronavirus GCCDC1 among a bat population: a two-year follow-up.

Science.gov (United States)

Obameso, Joseph O; Li, Hong; Jia, Hao; Han, Min; Zhu, Shiyan; Huang, Canping; Zhao, Yuhui; Zhao, Min; Bai, Yu; Yuan, Fei; Zhao, Honglan; Peng, Xia; Xu, Wen; Tan, Wenjie; Zhao, Yingze; Yuen, Kwok-Yung; Liu, William J; Lu, Lin; Gao, George F

2017-12-01

Bats are connected with the increasing numbers of emerging and re-emerging viruses that may break the species barrier and spread into the human population. Coronaviruses are one of the most common viruses discovered in bats, which were considered as the natural source of recent human-susceptible coronaviruses, i.e. SARS-COV and MERS-CoV. Our previous study reported the discovery of a bat-derived putative cross-family recombinant coronavirus with a reovirus gene p10, named as Ro-BatCoV GCCDC1. In this report, through a two-year follow-up of a special bat population in one specific cave of south China, we illustrate that Ro-BatCoV GCCDC1 persistently circulates among bats. Notably, through the longitudinal observation, we identified the dynamic evolution of Ro-BatCoV GCCDC1 in bats represented by continuously recombination events. Our study provides the first glimpse of the virus evolution in one longitudinally observed bat population cohort and underlines the surveillance and pre-warning of potential interspecies transmittable viruses in bats.

MULTI-TEMPORAL SAR INTERFEROMETRY FOR LANDSLIDE MONITORING

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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.

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.

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

SAR Raw Data Generation for Complex Airport Scenes

Directory of Open Access Journals (Sweden)

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.

Dendritic cell targeted chitosan nanoparticles for nasal DNA immunization against SARS CoV nucleocapsid protein.

Science.gov (United States)

Raghuwanshi, Dharmendra; Mishra, Vivek; Das, Dipankar; Kaur, Kamaljit; Suresh, Mavanur R

2012-04-02

This work investigates the formulation and in vivo efficacy of dendritic cell (DC) targeted plasmid DNA loaded biotinylated chitosan nanoparticles for nasal immunization against nucleocapsid (N) protein of severe acute respiratory syndrome coronavirus (SARS-CoV) as antigen. The induction of antigen-specific mucosal and systemic immune response at the site of virus entry is a major challenge for vaccine design. Here, we designed a strategy for noninvasive receptor mediated gene delivery to nasal resident DCs. The pDNA loaded biotinylated chitosan nanoparticles were prepared using a complex coacervation process and characterized for size, shape, surface charge, plasmid DNA loading and protection against nuclease digestion. The pDNA loaded biotinylated chitosan nanoparticles were targeted with bifunctional fusion protein (bfFp) vector for achieving DC selective targeting. The bfFp is a recombinant fusion protein consisting of truncated core-streptavidin fused with anti-DEC-205 single chain antibody (scFv). The core-streptavidin arm of fusion protein binds with biotinylated nanoparticles, while anti-DEC-205 scFv imparts targeting specificity to DC DEC-205 receptor. We demonstrate that intranasal administration of bfFp targeted formulations along with anti-CD40 DC maturation stimuli enhanced magnitude of mucosal IgA as well as systemic IgG against N protein. The strategy led to the detection of augmented levels of N protein specific systemic IgG and nasal IgA antibodies. However, following intranasal delivery of naked pDNA no mucosal and systemic immune responses were detected. A parallel comparison of targeted formulations using intramuscular and intranasal routes showed that the intramuscular route is superior for induction of systemic IgG responses compared with the intranasal route. Our results suggest that targeted pDNA delivery through a noninvasive intranasal route can be a strategy for designing low-dose vaccines.

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.

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.

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...

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

Directory of Open Access Journals (Sweden)

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.

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.

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

Integrating interferometric SAR data with levelling measurements of land subsidence using geostatistics

NARCIS (Netherlands)

Zhou, Y.; Stein, A.; Molenaar, M.

2003-01-01

Differential Synthetic Aperture Radar (SAR) interferometric (D-InSAR) data of ground surface deformation are affected by several error sources associated with image acquisitions and data processing. In this paper, we study the use of D-InSAR for quantifying land subsidence due to groundwater

The experience of SARS-related stigma at Amoy Gardens.

Science.gov (United States)

Lee, Sing; Chan, Lydia Y Y; Chau, Annie M Y; Kwok, Kathleen P S; Kleinman, Arthur

2005-11-01

Severe Acute Respiratory Syndrome (SARS) possesses characteristics that render it particularly prone to stigmatization. SARS-related stigma, despite its salience for public health and stigma research, has had little examination. This study combines survey and case study methods to examine subjective stigma among residents of Amoy Gardens (AG), the first officially recognized site of community outbreak of SARS in Hong Kong. A total of 903 residents of AG completed a self-report questionnaire derived from two focus groups conducted toward the end of the 3-month outbreak. Case studies of two residents who lived in Block E, the heart of the SARS epidemic at AG, complement the survey data. Findings show that stigma affected most residents and took various forms of being shunned, insulted, marginalized, and rejected in the domains of work, interpersonal relationships, use of services and schooling. Stigma was also associated with psychosomatic distress. Residents' strategies for diminishing stigma varied with gender, age, education, occupation, and proximity to perceived risk factors for SARS such as residential location, previous SARS infection and the presence of ex-SARS household members. Residents attributed stigma to government mismanagement, contagiousness of the mysterious SARS virus, and alarmist media reporting. Stigma clearly decreased, but never completely disappeared, after the outbreak. The findings confirm and add to existing knowledge on the varied origins, correlates, and impacts of stigma. They also highlight the synergistic roles of inconsistent health policy responses and risk miscommunication by the media in rapidly amplifying stigma toward an unfamiliar illness. While recognizing the intrinsically stigmatizing nature of public health measures to control SARS, we recommend that a consistent inter-sectoral approach is needed to minimize stigma and to make an effective health response to future outbreaks.

SAR Image Classification Based on Its Texture Features

Institute of Scientific and Technical Information of China (English)

LI Pingxiang; FANG Shenghui

2003-01-01

SAR images not only have the characteristics of all-ay, all-eather, but also provide object information which is different from visible and infrared sensors. However, SAR images have some faults, such as more speckles and fewer bands. The authors conducted the experiments of texture statistics analysis on SAR image features in order to improve the accuracy of SAR image interpretation.It is found that the texture analysis is an effective method for improving the accuracy of the SAR image interpretation.

The Ecosystems SAR (EcoSAR) an Airborne P-band Polarimetric InSAR for the Measurement of Vegetation Structure, Biomass and Permafrost

Science.gov (United States)

Rincon, Rafael F.; Fatoyinbo, Temilola; Ranson, K. Jon; Osmanoglu, Batuhan; Sun, Guoqing; Deshpande, Manohar D.; Perrine, Martin L.; Du Toit, Cornelis F.; Bonds, Quenton; Beck, Jaclyn;

FlexSAR, a high quality, flexible, cost effective, prototype SAR system

Science.gov (United States)

Jensen, Mark; Knight, Chad; Haslem, Brent

2016-05-01

The FlexSAR radar system was designed to be a high quality, low-cost, flexible research prototype instrument. Radar researchers and practitioners often desire the ability to prototype new or advanced configurations, yet the ability to enhance or upgrade existing radar systems can be cost prohibitive. FlexSAR answers the need for a flexible radar system that can be extended easily, with minimal cost and time expenditures. The design approach focuses on reducing the resources required for developing and validating new advanced radar modalities. Such an approach fosters innovation and provides risk reduction since actual radar data can be collected in the appropriate mode, processed, and analyzed early in the development process. This allows for an accurate, detailed understanding of the corresponding trade space. This paper is a follow-on to last years paper and discusses the advancements that have been made to the FlexSAR system. The overall system architecture is discussed and presented along with several examples illustrating the system utility.

Convolutional Neural Networks for SAR Image Segmentation

DEFF Research Database (Denmark)

Malmgren-Hansen, David; Nobel-Jørgensen, Morten

2015-01-01

Segmentation of Synthetic Aperture Radar (SAR) images has several uses, but it is a difficult task due to a number of properties related to SAR images. In this article we show how Convolutional Neural Networks (CNNs) can easily be trained for SAR image segmentation with good results. Besides...

PHARUS : PHased ARray Universal SAR

NARCIS (Netherlands)

Paquay, M.H.A.; Vermeulen, B.C.B.; Koomen, P.J.; Hoogeboom, P.; Snoeij, P.; Pouwels, H.

1996-01-01

In the Netherlands, a polarimetric C-band aircraft SAR (Synthetic Aperture Radar) has been developed. The project is called PHARUS, an acronm for PHased ARray Universal SAR. This instrument serves remote sensing applications. The antenna system contains 48 active modules (expandable to 96). A module

Absence of association between angiotensin converting enzyme polymorphism and development of adult respiratory distress syndrome in patients with severe acute respiratory syndrome: a case control study

Directory of Open Access Journals (Sweden)

Chiu Rossa WK

2005-04-01

Full Text Available Abstract Background It has been postulated that genetic predisposition may influence the susceptibility to SARS-coronavirus infection and disease outcomes. A recent study has suggested that the deletion allele (D allele of the angiotensin converting enzyme (ACE gene is associated with hypoxemia in SARS patients. Moreover, the ACE D allele has been shown to be more prevalent in patients suffering from adult respiratory distress syndrome (ARDS in a previous study. Thus, we have investigated the association between ACE insertion/deletion (I/D polymorphism and the progression to ARDS or requirement of intensive care in SARS patients. Method One hundred and forty genetically unrelated Chinese SARS patients and 326 healthy volunteers were recruited. The ACE I/D genotypes were determined by polymerase chain reaction and agarose gel electrophoresis. Results There is no significant difference in the genotypic distributions and the allelic frequencies of the ACE I/D polymorphism between the SARS patients and the healthy control subjects. Moreover, there is also no evidence that ACE I/D polymorphism is associated with the progression to ARDS or the requirement of intensive care in the SARS patients. In multivariate logistic analysis, age is the only factor associated with the development of ARDS while age and male sex are independent factors associated with the requirement of intensive care. Conclusion The ACE I/D polymorphism is not directly related to increased susceptibility to SARS-coronavirus infection and is not associated with poor outcomes after SARS-coronavirus infection.

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

Directory of Open Access Journals (Sweden)

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

Spaceborne Polarimetric SAR Interferometry: Performance Analysis and Mission Concepts

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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.

SARS-related Perceptions in Hong Kong

OpenAIRE

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

2005-01-01

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 o...

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 ?

PRF Ambiguity Detrmination for Radarsat ScanSAR System

Science.gov (United States)

Jin, Michael Y.

1998-01-01

PRF ambiguity is a potential problem for a spaceborne SAR operated at high frequencies. For a strip mode SAR, there were several approaches to solve this problem. This paper, however, addresses PRF ambiguity determination algorithms suitable for a burst mode SAR system such as the Radarsat ScanSAR. The candidate algorithms include the wavelength diversity algorithm, range look cross correlation algorithm, and multi-PRF algorithm.

Satellite on-board real-time SAR processor prototype

Science.gov (United States)

Bergeron, Alain; Doucet, Michel; Harnisch, Bernd; Suess, Martin; Marchese, Linda; Bourqui, Pascal; Desnoyers, Nicholas; Legros, Mathieu; Guillot, Ludovic; Mercier, Luc; Châteauneuf, François

2017-11-01

A Compact Real-Time Optronic SAR Processor has been successfully developed and tested up to a Technology Readiness Level of 4 (TRL4), the breadboard validation in a laboratory environment. SAR, or Synthetic Aperture Radar, is an active system allowing day and night imaging independent of the cloud coverage of the planet. The SAR raw data is a set of complex data for range and azimuth, which cannot be compressed. Specifically, for planetary missions and unmanned aerial vehicle (UAV) systems with limited communication data rates this is a clear disadvantage. SAR images are typically processed electronically applying dedicated Fourier transformations. This, however, can also be performed optically in real-time. Originally the first SAR images were optically processed. The optical Fourier processor architecture provides inherent parallel computing capabilities allowing real-time SAR data processing and thus the ability for compression and strongly reduced communication bandwidth requirements for the satellite. SAR signal return data are in general complex data. Both amplitude and phase must be combined optically in the SAR processor for each range and azimuth pixel. Amplitude and phase are generated by dedicated spatial light modulators and superimposed by an optical relay set-up. The spatial light modulators display the full complex raw data information over a two-dimensional format, one for the azimuth and one for the range. Since the entire signal history is displayed at once, the processor operates in parallel yielding real-time performances, i.e. without resulting bottleneck. Processing of both azimuth and range information is performed in a single pass. This paper focuses on the onboard capabilities of the compact optical SAR processor prototype that allows in-orbit processing of SAR images. Examples of processed ENVISAT ASAR images are presented. Various SAR processor parameters such as processing capabilities, image quality (point target analysis), weight and

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

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.

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

Traditional Chinese medicine herbal extracts of Cibotium barometz, Gentiana scabra, Dioscorea batatas, Cassia tora, and Taxillus chinensis inhibit SARS-CoV replication

Directory of Open Access Journals (Sweden)

Chih-Chun Wen

2011-10-01

Full Text Available Development of anti-severe acute respiratory syndrome associated coronavirus (SARS-CoV agents is pivotal to prevent the reemergence of the life-threatening disease, SARS. In this study, more than 200 extracts from Chinese medicinal herbs were evaluated for anti-SARS-CoV activities using a cell-based assay that measured SARS-CoV-induced cytopathogenic effect (CPE in vitro on Vero E6 cells. Six herbal extracts, one each from Gentianae Radix (龍膽 lóng dǎn; the dried rhizome of Gentiana scabra, Dioscoreae Rhizoma (山藥 shān yào; the tuber of Dioscorea batatas, Cassiae Semen (決明子 jué míng zǐ; the dried seed of Cassia tora and Loranthi Ramus (桑寄生 sāng jì shēng; the dried stem, with leaf of Taxillus chinensis (designated as GSH, DBM, CTH and TCH, respectively, and two from Rhizoma Cibotii (狗脊 gǒu jǐ; the dried rhizome of Cibotium barometz (designated as CBE and CBM, were found to be potent inhibitors of SARS-CoV at concentrations between 25 and 200 μg/ml. The concentrations of the six extracts needed to inhibit 50% of Vero E6 cell proliferation (CC50 and 50% of viral replication (EC50 were determined. The resulting selective index values (SI=CC50/EC50 of the most effective extracts CBE, GSH, DBM, CTH and TCH were>59.4,> 57.5,> 62.1,> 59.4, and>92.9, respectively. Among these extracts, CBM and DBM also showed significant inhibition of SARS-CoV 3CL protease activity with IC50 values of 39 μg/ml and 44 μg/ml, respectively. Our findings suggest that these six herbal extracts may have potential as candidates for future development of anti-SARS therapeutics.

Suppression of Coronavirus Replication by Cyclophilin Inhibitors

Directory of Open Access Journals (Sweden)

Takashi Sasaki

2013-05-01

Full Text Available Coronaviruses infect a variety of mammalian and avian species and cause serious diseases in humans, cats, mice, and birds in the form of severe acute respiratory syndrome (SARS, feline infectious peritonitis (FIP, mouse hepatitis, and avian infectious bronchitis, respectively. No effective vaccine or treatment has been developed for SARS-coronavirus or FIP virus, both of which cause lethal diseases. It has been reported that a cyclophilin inhibitor, cyclosporin A (CsA, could inhibit the replication of coronaviruses. CsA is a well-known immunosuppressive drug that binds to cellular cyclophilins to inhibit calcineurin, a calcium-calmodulin-activated serine/threonine-specific phosphatase. The inhibition of calcineurin blocks the translocation of nuclear factor of activated T cells from the cytosol into the nucleus, thus preventing the transcription of genes encoding cytokines such as interleukin-2. Cyclophilins are peptidyl-prolyl isomerases with physiological functions that have been described for many years to include chaperone and foldase activities. Also, many viruses require cyclophilins for replication; these include human immunodeficiency virus, vesicular stomatitis virus, and hepatitis C virus. However, the molecular mechanisms leading to the suppression of viral replication differ for different viruses. This review describes the suppressive effects of CsA on coronavirus replication.

Discovery, Synthesis, And Structure-Based Optimization of a Series of N-(tert-Butyl)-2-(N-arylamido)-2-(pyridin-3-yl) Acetamides (ML188) as Potent Noncovalent Small Molecule Inhibitors of the Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV) 3CL Protease

Energy Technology Data Exchange (ETDEWEB)

Jacobs, Jon [Vanderbilt Univ., Nashville, TN (United States); Vanderbilt Specialized Chemistry Center for Probe Development (MLPCN), Nashville, TN (United States); Grum-Tokars, Valerie [Northwestern Univ., Chicago, IL (United States); Zhou, Ya [Vanderbilt Univ., Nashville, TN (United States); Vanderbilt Specialized Chemistry Center for Probe Development (MLPCN), Nashville, TN (United States); Turlington, Mark [Vanderbilt Univ., Nashville, TN (United States); Vanderbilt Specialized Chemistry Center for Probe Development (MLPCN), Nashville, TN (United States); Saldanha, S. Adrian [Sripps Research Inst. Molecular Screening Center, Jupiter, FL (United States); Chase, Peter [Sripps Research Inst. Molecular Screening Center, Jupiter, FL (United States); Eggler, Aimee [Purdue Univ., West Lafayette, IN (United States); Dawson, Eric S. [Vanderbilt Univ., Nashville, TN (United States); Vanderbilt Specialized Chemistry Center for Probe Development (MLPCN), Nashville, TN (United States); Baez-Santos, Yahira M. [Purdue Univ., West Lafayette, IN (United States); Tomar, Sakshi [Purdue Univ., West Lafayette, IN (United States); Mielech, Anna M. [Loyola Univ. Medical Center, Maywood, IL (United States); Baker, Susan C. [Loyola Univ. Medical Center, Maywood, IL (United States); Lindsley, Craig W. [Vanderbilt Univ., Nashville, TN (United States); Vanderbilt Specialized Chemistry Center for Probe Development (MLPCN), Nashville, TN (United States); Hodder, Peter [Sripps Research Inst. Molecular Screening Center, Jupiter, FL (United States); Mesecar, Andrew [Purdue Univ., West Lafayette, IN (United States); Stauffer, Shaun R. [Vanderbilt Univ., Nashville, TN (United States); Vanderbilt Specialized Chemistry Center for Probe Development (MLPCN), Nashville, TN (United States)

2012-12-11

A high-throughput screen of the NIH molecular libraries sample collection and subsequent optimization of a lead dipeptide-like series of severe acute respiratory syndrome (SARS) main protease (3CLpro) inhibitors led to the identification of probe compound ML188 (16-(R), (R)-N-(4-(tert-butyl)phenyl)-N-(2-(tert-butylamino)-2-oxo-1-(pyridin-3-yl)ethyl)furan-2-carboxamide, Pubchem CID: 46897844). But, unlike the majority of reported coronavirus 3CLpro inhibitors that act via covalent modification of the enzyme, 16-(R) is a noncovalent SARS-CoV 3CLpro inhibitor with moderate MW and good enzyme and antiviral inhibitory activity. A multicomponent Ugi reaction was utilized to rapidly explore structure–activity relationships within S1', S1, and S2enzyme binding pockets. Moreover, the X-ray structure of SARS-CoV 3CLpro bound with 16-(R) was instrumental in guiding subsequent rounds of chemistry optimization. 16-(R) provides an excellent starting point for the further design and refinement of 3CLpro inhibitors that act by a noncovalent mechanism of action.

Genetic Characteristics of Coronaviruses from Korean Bats in 2016.

Science.gov (United States)

Lee, Saemi; Jo, Seong-Deok; Son, Kidong; An, Injung; Jeong, Jipseol; Wang, Seung-Jun; Kim, Yongkwan; Jheong, Weonhwa; Oem, Jae-Ku

2018-01-01

Bats have increasingly been recognized as the natural reservoir of severe acute respiratory syndrome (SARS), coronavirus, and other coronaviruses found in mammals. However, little research has been conducted on bat coronaviruses in South Korea. In this study, bat samples (332 oral swabs, 245 fecal samples, 38 urine samples, and 57 bat carcasses) were collected at 33 natural bat habitat sites in South Korea. RT-PCR and sequencing were performed for specific coronavirus genes to identify the bat coronaviruses in different bat samples. Coronaviruses were detected in 2.7% (18/672) of the samples: 13 oral swabs from one species of the family Rhinolophidae, and four fecal samples and one carcass (intestine) from three species of the family Vespertiliodae. To determine the genetic relationships of the 18 sequences obtained in this study and previously known coronaviruses, the nucleotide sequences of a 392-nt region of the RNA-dependent RNA polymerase (RdRp) gene were analyzed phylogenetically. Thirteen sequences belonging to SARS-like betacoronaviruses showed the highest nucleotide identity (97.1-99.7%) with Bat-CoV-JTMC15 reported in China. The other five sequences were most similar to MERS-like betacoronaviruses. Four nucleotide sequences displayed the highest identity (94.1-95.1%) with Bat-CoV-HKU5 from Hong Kong. The one sequence from a carcass showed the highest nucleotide identity (99%) with Bat-CoV-SC2013 from China. These results suggest that careful surveillance of coronaviruses from bats should be continued, because animal and human infections may result from the genetic variants present in bat coronavirus reservoirs.

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.

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.

Data Analytics for SAR

Energy Technology Data Exchange (ETDEWEB)

Murphy, David Patrick [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Calef, Matthew Thomas [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

2017-10-02

We assess the ability of variants of anomalous change detection (ACD) to identify human activity associated with large outdoor music festivals as they are seen from synthetic aperture radar (SAR) imagery collected by the Sentinel-1 satellite constellation. We found that, with appropriate feature vectors, ACD using random-forest machine learning was most effective at identifying changes associated with the human activity.

Playback system designed for X-Band SAR

International Nuclear Information System (INIS)

Yuquan, Liu; Changyong, Dou

2014-01-01

SAR(Synthetic Aperture Radar) has extensive application because it is daylight and weather independent. In particular, X-Band SAR strip map, designed by Institute of Remote Sensing and Digital Earth, Chinese Academy of Sciences, provides high ground resolution images, at the same time it has a large spatial coverage and a short acquisition time, so it is promising in multi-applications. When sudden disaster comes, the emergency situation acquires radar signal data and image as soon as possible, in order to take action to reduce loss and save lives in the first time. This paper summarizes a type of X-Band SAR playback processing system designed for disaster response and scientific needs. It describes SAR data workflow includes the payload data transmission and reception process. Playback processing system completes signal analysis on the original data, providing SAR level 0 products and quick image. Gigabit network promises radar signal transmission efficiency from recorder to calculation unit. Multi-thread parallel computing and ping pong operation can ensure computation speed. Through gigabit network, multi-thread parallel computing and ping pong operation, high speed data transmission and processing meet the SAR radar data playback real time requirement

Playback system designed for X-Band SAR

Science.gov (United States)

Yuquan, Liu; Changyong, Dou

2014-03-01

SAR(Synthetic Aperture Radar) has extensive application because it is daylight and weather independent. In particular, X-Band SAR strip map, designed by Institute of Remote Sensing and Digital Earth, Chinese Academy of Sciences, provides high ground resolution images, at the same time it has a large spatial coverage and a short acquisition time, so it is promising in multi-applications. When sudden disaster comes, the emergency situation acquires radar signal data and image as soon as possible, in order to take action to reduce loss and save lives in the first time. This paper summarizes a type of X-Band SAR playback processing system designed for disaster response and scientific needs. It describes SAR data workflow includes the payload data transmission and reception process. Playback processing system completes signal analysis on the original data, providing SAR level 0 products and quick image. Gigabit network promises radar signal transmission efficiency from recorder to calculation unit. Multi-thread parallel computing and ping pong operation can ensure computation speed. Through gigabit network, multi-thread parallel computing and ping pong operation, high speed data transmission and processing meet the SAR radar data playback real time requirement.

HTCC: Broad Range Inhibitor of Coronavirus Entry.

Directory of Open Access Journals (Sweden)

Aleksandra Milewska

Full Text Available To date, six human coronaviruses have been known, all of which are associated with respiratory infections in humans. With the exception of the highly pathogenic SARS and MERS coronaviruses, human coronaviruses (HCoV-NL63, HCoV-OC43, HCoV-229E, and HCoV-HKU1 circulate worldwide and typically cause the common cold. In most cases, infection with these viruses does not lead to severe disease, although acute infections in infants, the elderly, and immunocompromised patients may progress to severe disease requiring hospitalization. Importantly, no drugs against human coronaviruses exist, and only supportive therapy is available. Previously, we proposed the cationically modified chitosan, N-(2-hydroxypropyl-3-trimethylammonium chitosan chloride (HTCC, and its hydrophobically-modified derivative (HM-HTCC as potent inhibitors of the coronavirus HCoV-NL63. Here, we show that HTCC inhibits interaction of a virus with its receptor and thus blocks the entry. Further, we demonstrate that HTCC polymers with different degrees of substitution act as effective inhibitors of all low-pathogenic human coronaviruses.

Risk factors for SARS transmission from patients requiring intubation: a multicentre investigation in Toronto, Canada.

Directory of Open Access Journals (Sweden)

Janet Raboud

Full Text Available BACKGROUND: In the 2003 Toronto SARS outbreak, SARS-CoV was transmitted in hospitals despite adherence to infection control procedures. Considerable controversy resulted regarding which procedures and behaviours were associated with the greatest risk of SARS-CoV transmission. METHODS: A retrospective cohort study was conducted to identify risk factors for transmission of SARS-CoV during intubation from laboratory confirmed SARS patients to HCWs involved in their care. All SARS patients requiring intubation during the Toronto outbreak were identified. All HCWs who provided care to intubated SARS patients during treatment or transportation and who entered a patient room or had direct patient contact from 24 hours before to 4 hours after intubation were eligible for this study. Data was collected on patients by chart review and on HCWs by interviewer-administered questionnaire. Generalized estimating equation (GEE logistic regression models and classification and regression trees (CART were used to identify risk factors for SARS transmission. RESULTS: 45 laboratory-confirmed intubated SARS patients were identified. Of the 697 HCWs involved in their care, 624 (90% participated in the study. SARS-CoV was transmitted to 26 HCWs from 7 patients; 21 HCWs were infected by 3 patients. In multivariate GEE logistic regression models, presence in the room during fiberoptic intubation (OR = 2.79, p = .004 or ECG (OR = 3.52, p = .002, unprotected eye contact with secretions (OR = 7.34, p = .001, patient APACHE II score > or = 20 (OR = 17.05, p = .009 and patient Pa0(2/Fi0(2 ratio < or = 59 (OR = 8.65, p = .001 were associated with increased risk of transmission of SARS-CoV. In CART analyses, the four covariates which explained the greatest amount of variation in SARS-CoV transmission were covariates representing individual patients. CONCLUSION: Close contact with the airway of severely ill patients and failure of infection control practices to prevent exposure

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...

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...

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

Directory of Open Access Journals (Sweden)

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.

Image based SAR product simulation for analysis

Science.gov (United States)

Domik, G.; Leberl, F.

1987-01-01

SAR product simulation serves to predict SAR image gray values for various flight paths. Input typically consists of a digital elevation model and backscatter curves. A new method is described of product simulation that employs also a real SAR input image for image simulation. This can be denoted as 'image-based simulation'. Different methods to perform this SAR prediction are presented and advantages and disadvantages discussed. Ascending and descending orbit images from NASA's SIR-B experiment were used for verification of the concept: input images from ascending orbits were converted into images from a descending orbit; the results are compared to the available real imagery to verify that the prediction technique produces meaningful image data.

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.

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.

Potential of TCPInSAR in Monitoring Linear Infrastructure with a Small Dataset of SAR Images: Application of the Donghai Bridge, China

Directory of Open Access Journals (Sweden)

Lei Zhang

2018-03-01

Full Text Available Reliably monitoring deformation associated with linear infrastructures, such as long-span bridges, is vitally important to assess their structural health. In this paper, we attempt to employ satellite interferometric synthetic aperture radar (InSAR to map the deformation of Donghai Bridge over a half of an annual cycle. The bridge, as the fourth longest cross-sea bridge in the world, located in the north of Hangzhou Bay, East China Sea where the featureless sea surface largely occupied the radar image raises challenges to accurately co-register the coherent points along the bridge. To tackle the issues due to co-registration and the limited number of synthetic aperture radar (SAR images, we adopt the termed temporarily-coherent point (TCP InSAR (TCPInSAR technique to process the radar images. TCPs that are not necessarily coherent during the whole observation period can be identified within every two SAR acquisitions during the co-registration procedure based on the statistics of azimuth and range offsets. In the process, co-registration is performed only using the offsets of these TCPs, leading to improved interferometric phases and the local Delaunay triangulation is used to construct point pairs to reduce the atmospheric artifacts along the bridge. With the TCPInSAR method the deformation rate along the bridge is estimated with no need of phase unwrapping. The achieved result reveals that the Donghai Bridge suffered a line-of-sight (LOS deformation rate up to −2.3 cm/year from January 2009 to July 2009 at the cable-stayed part, which is likely due to the thermal expansion of cables.

The lessons of SARS in Hong Kong.

Science.gov (United States)

Lai, Thomas Sik To; Yu, Wai Cho

2010-02-01

Severe acute respiratory syndrome (SARS) is a novel coronavirus infection which broke out in Hong Kong in March 2003. Princess Margaret Hospital was designated to manage this new, mysterious and serious disease. Healthcare workers had to work under extremely stressful and often risky conditions to care for patients. Despite manpower and equipment reinforcements, staff infection occurred as a result of bodily exhaustion, working in an unfamiliar environment and lapses in infection control. Patients suffered even more, not only due to physical discomfort, but also because of the fear of isolation and death away from family and friends. Health authorities learnt their lessons in the outbreak and formulated emergency plans for future infectious disease epidemics. The healthcare infrastructure has been examined and upgraded with regard to intensive care capacity, infection control measures, professional training, manpower deployment, staff facilities, and stockpiling of drugs and personal protective equipment.

Air pollution and case fatality of SARS in the People's Republic of China: an ecologic study

Directory of Open Access Journals (Sweden)

Yu Shun-Zhang

2003-11-01

Full Text Available Abstract Background Severe acute respiratory syndrome (SARS has claimed 349 lives with 5,327 probable cases reported in mainland China since November 2002. SARS case fatality has varied across geographical areas, which might be partially explained by air pollution level. Methods Publicly accessible data on SARS morbidity and mortality were utilized in the data analysis. Air pollution was evaluated by air pollution index (API derived from the concentrations of particulate matter, sulfur dioxide, nitrogen dioxide, carbon monoxide and ground-level ozone. Ecologic analysis was conducted to explore the association and correlation between air pollution and SARS case fatality via model fitting. Partially ecologic studies were performed to assess the effects of long-term and short-term exposures on the risk of dying from SARS. Results Ecologic analysis conducted among 5 regions with 100 or more SARS cases showed that case fatality rate increased with the increment of API (case fatality = - 0.063 + 0.001 * API. Partially ecologic study based on short-term exposure demonstrated that SARS patients from regions with moderate APIs had an 84% increased risk of dying from SARS compared to those from regions with low APIs (RR = 1.84, 95% CI: 1.41–2.40. Similarly, SARS patients from regions with high APIs were twice as likely to die from SARS compared to those from regions with low APIs. (RR = 2.18, 95% CI: 1.31–3.65. Partially ecologic analysis based on long-term exposure to ambient air pollution showed the similar association. Conclusion Our studies demonstrated a positive association between air pollution and SARS case fatality in Chinese population by utilizing publicly accessible data on SARS statistics and air pollution indices. Although ecologic fallacy and uncontrolled confounding effect might have biased the results, the possibility of a detrimental effect of air pollution on the prognosis of SARS patients deserves further investigation.

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...

Use of SAR data for proliferation monitoring

International Nuclear Information System (INIS)

Lafitte, M.; Robin, J.P.

2013-01-01

Synthetic Aperture Radar (SAR) is an active and coherent system. SAR images are complex data which contain both amplitude and phase information. The analysis of single SAR data required a very good experience and a good understanding of SAR geometry regarding layover, shadowing, texture and speckle. Image analyst can depicts and describes most of the facilities related to nuclear proliferation and weapons of mass destruction (WMD). The Amplitude Change Detection (ACD) technique consists of a combination of two or three SAR amplitude data acquired with similar orbit and frequency parameters on different dates. That technique provides a very good overview of the changes and particularly regarding vehicles activity and constructions ongoing within the area of interest over the monitoring period. One of the particularities of the SAR systems is to be coherent. The phase of a single image is not exploitable. Thus when two or more SAR data have been acquired with identical orbit and frequency parameters, the phases shift are indicators of changes such as structural changes, terrain subsidence or motion. The Multi-Temporal Coherence (MTC) product merged the two type of information previously detailed: the ACD and coherence analysis. It consists of the combination of two amplitude images and the corresponding coherence computed image. The MTC image may highlights changes between two states of a target which on the ACD analysis appeared unchanged. EUSC uses the difference interferometry techniques in order to estimate volumes that have changed between two acquisition dates. The paper is followed by the slides of the presentation. (A.C.)

SAR and LIDAR fusion: experiments and applications

Science.gov (United States)

Edwards, Matthew C.; Zaugg, Evan C.; Bradley, Joshua P.; Bowden, Ryan D.

2013-05-01

In recent years ARTEMIS, Inc. has developed a series of compact, versatile Synthetic Aperture Radar (SAR) systems which have been operated on a variety of small manned and unmanned aircraft. The multi-frequency-band SlimSAR has demonstrated a variety of capabilities including maritime and littoral target detection, ground moving target indication, polarimetry, interferometry, change detection, and foliage penetration. ARTEMIS also continues to build upon the radar's capabilities through fusion with other sensors, such as electro-optical and infrared camera gimbals and light detection and ranging (LIDAR) devices. In this paper we focus on experiments and applications employing SAR and LIDAR fusion. LIDAR is similar to radar in that it transmits a signal which, after being reflected or scattered by a target area, is recorded by the sensor. The differences are that a LIDAR uses a laser as a transmitter and optical sensors as a receiver, and the wavelengths used exhibit a very different scattering phenomenology than the microwaves used in radar, making SAR and LIDAR good complementary technologies. LIDAR is used in many applications including agriculture, archeology, geo-science, and surveying. Some typical data products include digital elevation maps of a target area and features and shapes extracted from the data. A set of experiments conducted to demonstrate the fusion of SAR and LIDAR data include a LIDAR DEM used in accurately processing the SAR data of a high relief area (mountainous, urban). Also, feature extraction is used in improving geolocation accuracy of the SAR and LIDAR data.

Polarimetric SAR interferometry-based decomposition modelling for reliable scattering retrieval

Science.gov (United States)

Agrawal, Neeraj; Kumar, Shashi; Tolpekin, Valentyn

2016-05-01

Fully Polarimetric SAR (PolSAR) data is used for scattering information retrieval from single SAR resolution cell. Single SAR resolution cell may contain contribution from more than one scattering objects. Hence, single or dual polarized data does not provide all the possible scattering information. So, to overcome this problem fully Polarimetric data is used. It was observed in previous study that fully Polarimetric data of different dates provide different scattering values for same object and coefficient of determination obtained from linear regression between volume scattering and aboveground biomass (AGB) shows different values for the SAR dataset of different dates. Scattering values are important input elements for modelling of forest aboveground biomass. In this research work an approach is proposed to get reliable scattering from interferometric pair of fully Polarimetric RADARSAT-2 data. The field survey for data collection was carried out for Barkot forest during November 10th to December 5th, 2014. Stratified random sampling was used to collect field data for circumference at breast height (CBH) and tree height measurement. Field-measured AGB was compared with the volume scattering elements obtained from decomposition modelling of individual PolSAR images and PolInSAR coherency matrix. Yamaguchi 4-component decomposition was implemented to retrieve scattering elements from SAR data. PolInSAR based decomposition was the great challenge in this work and it was implemented with certain assumptions to create Hermitian coherency matrix with co-registered polarimetric interferometric pair of SAR data. Regression analysis between field-measured AGB and volume scattering element obtained from PolInSAR data showed highest (0.589) coefficient of determination. The same regression with volume scattering elements of individual SAR images showed 0.49 and 0.50 coefficients of determination for master and slave images respectively. This study recommends use of

Federated query services provided by the Seamless SAR Archive project

Science.gov (United States)

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

2013-12-01

The NASA Advancing Collaborative Connections for Earth System Science (ACCESS) seamless synthetic aperture radar (SAR) archive (SSARA) project is a 2-year collaboration between UNAVCO, the Alaska Satellite Facility (ASF), the Jet Propulsion Laboratory (JPL), and OpenTopography at the San Diego Supercomputer Center (SDSC) to design and implement a seamless distributed access system for SAR data and derived data products (i.e. interferograms). A major milestone for the first year of the SSARA project was a unified application programming interface (API) for SAR data search and results at ASF 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 (http://www.unavco.org/ws/brokered/ssara/sar/search). A command line client that utilizes this new service is provided as an open source utility for the community on GitHub (https://github.com/bakerunavco/SSARA). Further API development and enhancements added more InSAR specific keywords and quality control parameters (Doppler centroid, faraday rotation, InSAR stack size, and perpendicular baselines). To facilitate InSAR processing, the federated query service incorporated URLs for DEM (from OpenTopography) and tropospheric corrections (from the JPL OSCAR service) in addition to the URLs for SAR data. This federated query service will provide relevant QC metadata for selecting pairs of SAR data for InSAR processing and all the URLs necessary for interferogram generation. Interest from the international community has prompted an effort to incorporate other SAR data archives (the ESA Virtual Archive 4 and the DLR TerraSAR-X_SSC Geohazard Supersites and Natural Laboratories collections) into the federated query service which provide data for researchers outside the US and North America.

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.

Attribute Learning for SAR Image Classification

Directory of Open Access Journals (Sweden)

Chu He

2017-04-01

Full Text Available This paper presents a classification approach based on attribute learning for high spatial resolution Synthetic Aperture Radar (SAR images. To explore the representative and discriminative attributes of SAR images, first, an iterative unsupervised algorithm is designed to cluster in the low-level feature space, where the maximum edge response and the ratio of mean-to-variance are included; a cross-validation step is applied to prevent overfitting. Second, the most discriminative clustering centers are sorted out to construct an attribute dictionary. By resorting to the attribute dictionary, a representation vector describing certain categories in the SAR image can be generated, which in turn is used to perform the classifying task. The experiments conducted on TerraSAR-X images indicate that those learned attributes have strong visual semantics, which are characterized by bright and dark spots, stripes, or their combinations. The classification method based on these learned attributes achieves better results.

SAR system development for UAV multicopter platforms

OpenAIRE

Escartin Martínez, Antonio

2015-01-01

SAR system development for UAV multicopter platforms This thesis describes the optimization of a synthetic aperture radar (SAR) at X-band and its integration into an unmanned aerial vehicle (UAV) of type octocopter. For such optimization the SAR system functionality was extended from singlepol to fulpol and it has been optimized at hardware level in order to improve its quality against noise figure. After its integration into the octocopter platform, its features has been used in order to ...

Novel Polarimetric SAR Interferometry Algorithms, Phase I

Data.gov (United States)

National Aeronautics and Space Administration — Polarimetric radar interferometry (PolInSAR) is a new SAR imaging mode that is rapidly becoming an important technique for bare earth topographic mapping, tree...

Altered Pathogenesis of Porcine Respiratory Coronavirus in Pigs due to Immunosuppressive Effects of Dexamethasone: Implications for Corticosteroid Use in Treatment of Severe Acute Respiratory Syndrome Coronavirus▿

OpenAIRE

Jung, Kwonil; Alekseev, Konstantin P.; Zhang, Xinsheng; Cheon, Doo-Sung; Vlasova, Anastasia N.; Saif, Linda J.

2007-01-01

The pathogenesis and optimal treatments for severe acute respiratory syndrome (SARS) are unclear, although corticosteroids were used to reduce lung and systemic inflammation. Because the pulmonary pathology of porcine respiratory coronavirus (PRCV) in pigs resembles SARS, we used PRCV as a model to clarify the effects of the corticosteroid dexamethasone (DEX) on coronavirus (CoV)-induced pneumonia. Conventional weaned pigs (n = 130) in one of four groups (PRCV/phosphate-buffered saline [PBS] ...

PHARUS: A C-band Airborne SAR

NARCIS (Netherlands)

Hoogeboom, P.; Koomen, P.J.; Pouwels, H.; Snoeij, P.

1990-01-01

In The Netherlands a plan to design aircraft and build a polarimetric C-band SAR system of a novel design, called PHARUS (PHased Array Universal SAR) is carried out by three institutes. These institutes are the Physics and Electronics Laboratory TNO in The Hague (prime contractor and project

Risk factors for chronic post-traumatic stress disorder (PTSD) in SARS survivors.

Science.gov (United States)

Mak, Ivan Wing Chit; Chu, Chung Ming; Pan, Pey Chyou; Yiu, Michael Gar Chung; Ho, Suzanne C; Chan, Veronica Lee

2010-01-01

Post-traumatic stress disorder (PTSD) is one of the most prevalent long-term psychiatric diagnoses among survivors of severe acute respiratory syndrome (SARS). The objective of this study was to identify the predictors of chronic PTSD in SARS survivors. PTSD at 30 months after the SARS outbreak was assessed by the Structured Clinical Interview for the DSM-IV. Survivors' demographic data, medical information and psychosocial variables were collected for risk factor analysis. Multivariate logistic regression analysis showed that female gender as well as the presence of chronic medical illnesses diagnosed before the onset of SARS and avascular necrosis were independent predictors of PTSD at 30 months post-SARS. Associated factors included higher-chance external locus of control, higher functional disability and higher average pain intensity. The study of PTSD at 30 months post-SARS showed that the predictive value of acute medical variables may fade out. Our findings do not support some prior hypotheses that the use of high dose corticosteroids is protective against the development of PTSD. On the contrary, the adversity both before and after the SARS outbreak may be more important in hindering recovery from PTSD. The risk factor analysis can not only improve the detection of hidden psychiatric complications but also provide insight for the possible model of care delivery for the SARS survivors. With the complex interaction of the biopsychosocial challenges of SARS, an integrated multidisciplinary clinic setting may be a superior approach in the long-term management of complicated PTSD cases. Copyright © 2010 Elsevier Inc. All rights reserved.

Structural Analysis of Major Species Barriers between Humans and Palm Civets for Severe Acute Respiratory Syndrome Coronavirus Infections

Energy Technology Data Exchange (ETDEWEB)

Li, Fang (UMM)

2008-09-23

It is believed that a novel coronavirus, severe acute respiratory syndrome coronavirus (SARS-CoV), was passed from palm civets to humans and caused the epidemic of SARS in 2002 to 2003. The major species barriers between humans and civets for SARS-CoV infections are the specific interactions between a defined receptor-binding domain (RBD) on a viral spike protein and its host receptor, angiotensin-converting enzyme 2 (ACE2). In this study a chimeric ACE2 bearing the critical N-terminal helix from civet and the remaining peptidase domain from human was constructed, and it was shown that this construct has the same receptor activity as civet ACE2. In addition, crystal structures of the chimeric ACE2 complexed with RBDs from various human and civet SARS-CoV strains were determined. These structures, combined with a previously determined structure of human ACE2 complexed with the RBD from a human SARS-CoV strain, have revealed a structural basis for understanding the major species barriers between humans and civets for SARS-CoV infections. They show that the major species barriers are determined by interactions between four ACE2 residues (residues 31, 35, 38, and 353) and two RBD residues (residues 479 and 487), that early civet SARS-CoV isolates were prevented from infecting human cells due to imbalanced salt bridges at the hydrophobic virus/receptor interface, and that SARS-CoV has evolved to gain sustained infectivity for human cells by eliminating unfavorable free charges at the interface through stepwise mutations at positions 479 and 487. These results enhance our understanding of host adaptations and cross-species infections of SARS-CoV and other emerging animal viruses.

Accelerated Scientific InSAR Processing, Phase I

Data.gov (United States)

National Aeronautics and Space Administration — Neva Ridge Technologies proposes to develop a suite of software tools for the analysis of SAR and InSAR data, focused on having a robust and adopted capability well...

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.

Polarimetric SAR image classification based on discriminative dictionary learning model

Science.gov (United States)

Sang, Cheng Wei; Sun, Hong

2018-03-01

Polarimetric SAR (PolSAR) image classification is one of the important applications of PolSAR remote sensing. It is a difficult high-dimension nonlinear mapping problem, the sparse representations based on learning overcomplete dictionary have shown great potential to solve such problem. The overcomplete dictionary plays an important role in PolSAR image classification, however for PolSAR image complex scenes, features shared by different classes will weaken the discrimination of learned dictionary, so as to degrade classification performance. In this paper, we propose a novel overcomplete dictionary learning model to enhance the discrimination of dictionary. The learned overcomplete dictionary by the proposed model is more discriminative and very suitable for PolSAR classification.

InSAR observations of active volcanoes in Latin America

Science.gov (United States)

Morales Rivera, A. M.; Chaussard, E.; Amelung, F.

2012-12-01

Over the last decade satellite-based interferometric synthetic aperture radar (InSAR) has developed into a well-known technique to gauge the status of active volcanoes. The InSAR technique can detect the ascent of magma to shallow levels of the volcanic plumbing system because new arriving magma pressurizes the system. This is likely associated with the inflation of the volcanic edifice and the surroundings. Although the potential of InSAR to detect magma migration is well known, the principal limitation was that only for few volcanoes frequent observations were acquired. The ALOS-1 satellite of the Japanese Aerospace Exploration Agency (JAXA) acquired a global L-band data set of 15-20 acquisitions during 2006-2011. Here we use ALOS InSAR and Small Baseline (SB) time-series methods for a ground deformation survey of Latin America with emphasis on the northern Andes. We present time-dependent ground deformation data for the volcanoes in Colombia, Ecuador and Peru and interpret the observations in terms of the dynamics of the volcanic systems.

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.

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

Forest parameter estimation using polarimetric SAR interferometry techniques at low frequencies

International Nuclear Information System (INIS)

Lee, Seung-Kuk

2013-01-01

Polarimetric Synthetic Aperture Radar Interferometry (Pol-InSAR) is an active radar remote sensing technique based on the coherent combination of both polarimetric and interferometric observables. The Pol-InSAR technique provided a step forward in quantitative forest parameter estimation. In the last decade, airborne SAR experiments evaluated the potential of Pol-InSAR techniques to estimate forest parameters (e.g., the forest height and biomass) with high accuracy over various local forest test sites. This dissertation addresses the actual status, potentials and limitations of Pol-InSAR inversion techniques for 3-D forest parameter estimations on a global scale using lower frequencies such as L- and P-band. The multi-baseline Pol-InSAR inversion technique is applied to optimize the performance with respect to the actual level of the vertical wave number and to mitigate the impact of temporal decorrelation on the Pol-InSAR forest parameter inversion. Temporal decorrelation is a critical issue for successful Pol-InSAR inversion in the case of repeat-pass Pol-InSAR data, as provided by conventional satellites or airborne SAR systems. Despite the limiting impact of temporal decorrelation in Pol-InSAR inversion, it remains a poorly understood factor in forest height inversion. Therefore, the main goal of this dissertation is to provide a quantitative estimation of the temporal decorrelation effects by using multi-baseline Pol-InSAR data. A new approach to quantify the different temporal decorrelation components is proposed and discussed. Temporal decorrelation coefficients are estimated for temporal baselines ranging from 10 minutes to 54 days and are converted to height inversion errors. In addition, the potential of Pol-InSAR forest parameter estimation techniques is addressed and projected onto future spaceborne system configurations and mission scenarios (Tandem-L and BIOMASS satellite missions at L- and P-band). The impact of the system parameters (e.g., bandwidth

Feline and canine coronaviruses: common genetic and pathobiological features.

Science.gov (United States)

Le Poder, Sophie

2011-01-01

A new human coronavirus responsible for severe acute respiratory syndrome (SARS) was identified in 2003, which raised concern about coronaviruses as agents of serious infectious disease. Nevertheless, coronaviruses have been known for about 50 years to be major agents of respiratory, enteric, or systemic infections of domestic and companion animals. Feline and canine coronaviruses are widespread among dog and cat populations, sometimes leading to the fatal diseases known as feline infectious peritonitis (FIP) and pantropic canine coronavirus infection in cats and dogs, respectively. In this paper, different aspects of the genetics, host cell tropism, and pathogenesis of the feline and canine coronaviruses (FCoV and CCoV) will be discussed, with a view to illustrating how study of FCoVs and CCoVs can improve our general understanding of the pathobiology of coronaviruses.

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

Inhibition of severe acute respiratory syndrome coronavirus replication in a lethal SARS-CoV BALB/c mouse model by stinging nettle lectin, Urtica dioica agglutinin

Science.gov (United States)

Kumaki, Yohichi; Wandersee, Miles K.; Smith, Aaron J.; Zhou, Yanchen; Simmons, Graham; Nelson, Nathan M.; Bailey, Kevin W.; Vest, Zachary G.; Li, Joseph K.-K.; Chan, Paul Kay-Sheung; Smee, Donald F.; Barnard, Dale L.

2011-01-01

Urtica dioica agglutinin (UDA) is a small plant monomeric lectin, 8.7 kDa in size, with an N-acetylglucosamine specificity that inhibits viruses from Nidovirales in vitro. In the current study, we first examined the efficacy of UDA on the replication of different SARS-CoV strains in Vero 76 cells. UDA inhibited virus replication in a dose-dependent manner and reduced virus yields of the Urbani strain by 90% at 1.1 ± 0.4 µg/ml in Vero 76 cells. Then, UDA was tested for efficacy in a lethal SARS-CoV-infected BALB/c mouse model. BALB/c mice were infected with two LD50 (575 PFU) of virus for 4 hours before the mice were treated intraperitoneally with UDA at 20, 10, 5 or 0 mg/kg/day for 4 days. Treatment with UDA at 5 mg/kg significantly protected the mice against a lethal infection with mouse-adapted SARS-CoV (p<0.001), but did not significantly reduce virus lung titers. All virus-infected mice receiving UDA treatments were also significantly protected against weight loss (p<0.001). UDA also effectively reduced lung pathology scores. At day 6 after virus exposure, all groups of mice receiving UDA had much lower lung weights than did the placebo-treated mice. Thus, our data suggest that UDA treatment of SARS infection in mice leads to a substantial therapeutic effect that protects mice against death and weight loss. Furthermore, the mode of action of UDA in vitro was further investigated using live SARS-CoV Urbani strain virus and retroviral particles pseudotyped with SARS-CoV spike (S). UDA specifically inhibited the replication of live SARS-CoV or SARS-CoV pseudotyped virus when added just before, but not after, adsorption. These data suggested that UDA likely inhibits SARS-CoV infection by targeting early stages of the replication cycle, namely, adsorption or penetration. In addition, we demonstrated that UDA neutralizes the virus infectivity, presumably by binding to the SARS-CoV spike (S) glycoprotein. Finally, the target molecule for inhibition of virus

Geometric calibration of ERS satellite SAR images

DEFF Research Database (Denmark)

Mohr, Johan Jacob; Madsen, Søren Nørvang

2001-01-01

Geometric calibration of the European Remote Sensing (ERS) Satellite synthetic aperture radar (SAR) slant range images is important in relation to mapping areas without ground reference points and also in relation to automated processing. The relevant SAR system parameters are discussed...

Crystal Structure of a Monomeric Form of Severe Acute Respiratory Syndrome Coronavirus Endonuclease Nsp15 Suggests a Role for Hexamerization As An Allosteric Switch

Energy Technology Data Exchange (ETDEWEB)

Joseph, J.S.; Saikatendu, K.S.; Subramanian, V.; Neuman, B.W.; Buchmeier, M.J.; Stevens, R.C.; Kuhn, P.; /Scripps Res. Inst.

2007-07-09

Mature nonstructural protein-15 (nsp15) from the severe acute respiratory syndrome coronavirus (SARS-CoV) contains a novel uridylate-specific Mn{sup 2+}-dependent endoribonuclease (NendoU). Structure studies of the full-length form of the obligate hexameric enzyme from two CoVs, SARS-CoV and murine hepatitis virus, and its monomeric homologue, XendoU from Xenopus laevis, combined with mutagenesis studies have implicated several residues in enzymatic activity and the N-terminal domain as the major determinant of hexamerization. However, the tight link between hexamerization and enzyme activity in NendoUs has remained an enigma. Here, we report the structure of a trimmed, monomeric form of SARS-CoV nsp15 (residues 28 to 335) determined to a resolution of 2.9 Angstroms. The catalytic loop (residues 234 to 249) with its two reactive histidines (His 234 and His 249) is dramatically flipped by {approx}120 degrees into the active site cleft. Furthermore, the catalytic nucleophile Lys 289 points in a diametrically opposite direction, a consequence of an outward displacement of the supporting loop (residues 276 to 295). In the full-length hexameric forms, these two loops are packed against each other and are stabilized by intimate intersubunit interactions. Our results support the hypothesis that absence of an adjacent monomer due to deletion of the hexamerization domain is the most likely cause for disruption of the active site, offering a structural basis for why only the hexameric form of this enzyme is active.

Clinical and epidemiological predictors of transmission in Severe Acute Respiratory Syndrome (SARS

Directory of Open Access Journals (Sweden)

Leong Hoe

2006-10-01

Full Text Available Abstract Background Only a minority of probable SARS cases caused transmission. We assess if any epidemiological or clinical factors in SARS index patients were associated with increased probability of transmission. Methods We used epidemiological and clinical data on probable SARS patients admitted to Tan Tock Seng Hospital. Using a case-control approach, index patients who had probable SARS who subsequently transmitted the disease to at least one other patient were analysed as "cases" against patients with no transmission as "controls", using multivariate logistic regression analysis. Results 98 index patients were available for analysis (22 with transmission, 76 with no transmission. Covariates positively associated with transmission in univariate analysis at p 650 IU/L (OR 6.4, 23.8 and 4.7 respectively. Conclusion Clinical and epidemiological factors can help us to explain why transmission was observed in some instances but not in others.

Crisis prevention and management during SARS outbreak, Singapore.

Science.gov (United States)

Quah, Stella R; Hin-Peng, Lee

2004-02-01

We discuss crisis prevention and management during the first 3 months of the severe acute respiratory syndrome (SARS) outbreak in Singapore. Four public health issues were considered: prevention measures, self-health evaluation, SARS knowledge, and appraisal of crisis management. We conducted telephone interviews with a representative sample of 1,201 adults, > or = 21 years of age. We found that sex, age, and attitude (anxiety and perception of open communication with authorities) were associated with practicing preventive measures. Analysis of Singapore's outbreak improves our understanding of the social dimensions of infectious disease outbreaks.

Improved SAR Image Coregistration Using Pixel-Offset Series

KAUST Repository

Wang, Teng

2014-03-14

Synthetic aperture radar (SAR) image coregistration is a key procedure before interferometric SAR (InSAR) time-series analysis can be started. However, many geophysical data sets suffer from severe decorrelation problems due to a variety of reasons, making precise coregistration a nontrivial task. Here, we present a new strategy that uses a pixel-offset series of detected subimage patches dominated by point-like targets (PTs) to improve SAR image coregistrations. First, all potentially coherent image pairs are coregistered in a conventional way. In this step, we propose a coregistration quality index for each image to rank its relative “significance” within the data set and to select a reference image for the SAR data set. Then, a pixel-offset series of detected PTs is made from amplitude maps to improve the geometrical mapping functions. Finally, all images are resampled depending on the pixel offsets calculated from the updated geometrical mapping functions. We used images from a rural region near the North Anatolian Fault in eastern Turkey to test the proposed method, and clear coregistration improvements were found based on amplitude stability. This enhanced the fact that the coregistration strategy should therefore lead to improved InSAR time-series analysis results.

Improved SAR Image Coregistration Using Pixel-Offset Series

KAUST Repository

Wang, Teng; Jonsson, Sigurjon; Hanssen, Ramon F.

2014-01-01

Synthetic aperture radar (SAR) image coregistration is a key procedure before interferometric SAR (InSAR) time-series analysis can be started. However, many geophysical data sets suffer from severe decorrelation problems due to a variety of reasons, making precise coregistration a nontrivial task. Here, we present a new strategy that uses a pixel-offset series of detected subimage patches dominated by point-like targets (PTs) to improve SAR image coregistrations. First, all potentially coherent image pairs are coregistered in a conventional way. In this step, we propose a coregistration quality index for each image to rank its relative “significance” within the data set and to select a reference image for the SAR data set. Then, a pixel-offset series of detected PTs is made from amplitude maps to improve the geometrical mapping functions. Finally, all images are resampled depending on the pixel offsets calculated from the updated geometrical mapping functions. We used images from a rural region near the North Anatolian Fault in eastern Turkey to test the proposed method, and clear coregistration improvements were found based on amplitude stability. This enhanced the fact that the coregistration strategy should therefore lead to improved InSAR time-series analysis results.

URBAN MODELLING PERFORMANCE OF NEXT GENERATION SAR MISSIONS

Directory of Open Access Journals (Sweden)

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.

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.

High-Resolution Analysis of Coronavirus Gene Expression by RNA Sequencing and Ribosome Profiling.

Science.gov (United States)

Irigoyen, Nerea; Firth, Andrew E; Jones, Joshua D; Chung, Betty Y-W; Siddell, Stuart G; Brierley, Ian

2016-02-01

Members of the family Coronaviridae have the largest genomes of all RNA viruses, typically in the region of 30 kilobases. Several coronaviruses, such as Severe acute respiratory syndrome-related coronavirus (SARS-CoV) and Middle East respiratory syndrome-related coronavirus (MERS-CoV), are of medical importance, with high mortality rates and, in the case of SARS-CoV, significant pandemic potential. Other coronaviruses, such as Porcine epidemic diarrhea virus and Avian coronavirus, are important livestock pathogens. Ribosome profiling is a technique which exploits the capacity of the translating ribosome to protect around 30 nucleotides of mRNA from ribonuclease digestion. Ribosome-protected mRNA fragments are purified, subjected to deep sequencing and mapped back to the transcriptome to give a global "snap-shot" of translation. Parallel RNA sequencing allows normalization by transcript abundance. Here we apply ribosome profiling to cells infected with Murine coronavirus, mouse hepatitis virus, strain A59 (MHV-A59), a model coronavirus in the same genus as SARS-CoV and MERS-CoV. The data obtained allowed us to study the kinetics of virus transcription and translation with exquisite precision. We studied the timecourse of positive and negative-sense genomic and subgenomic viral RNA production and the relative translation efficiencies of the different virus ORFs. Virus mRNAs were not found to be translated more efficiently than host mRNAs; rather, virus translation dominates host translation at later time points due to high levels of virus transcripts. Triplet phasing of the profiling data allowed precise determination of translated reading frames and revealed several translated short open reading frames upstream of, or embedded within, known virus protein-coding regions. Ribosome pause sites were identified in the virus replicase polyprotein pp1a ORF and investigated experimentally. Contrary to expectations, ribosomes were not found to pause at the ribosomal

High-Resolution Analysis of Coronavirus Gene Expression by RNA Sequencing and Ribosome Profiling.

Directory of Open Access Journals (Sweden)

Nerea Irigoyen

2016-02-01

Full Text Available Members of the family Coronaviridae have the largest genomes of all RNA viruses, typically in the region of 30 kilobases. Several coronaviruses, such as Severe acute respiratory syndrome-related coronavirus (SARS-CoV and Middle East respiratory syndrome-related coronavirus (MERS-CoV, are of medical importance, with high mortality rates and, in the case of SARS-CoV, significant pandemic potential. Other coronaviruses, such as Porcine epidemic diarrhea virus and Avian coronavirus, are important livestock pathogens. Ribosome profiling is a technique which exploits the capacity of the translating ribosome to protect around 30 nucleotides of mRNA from ribonuclease digestion. Ribosome-protected mRNA fragments are purified, subjected to deep sequencing and mapped back to the transcriptome to give a global "snap-shot" of translation. Parallel RNA sequencing allows normalization by transcript abundance. Here we apply ribosome profiling to cells infected with Murine coronavirus, mouse hepatitis virus, strain A59 (MHV-A59, a model coronavirus in the same genus as SARS-CoV and MERS-CoV. The data obtained allowed us to study the kinetics of virus transcription and translation with exquisite precision. We studied the timecourse of positive and negative-sense genomic and subgenomic viral RNA production and the relative translation efficiencies of the different virus ORFs. Virus mRNAs were not found to be translated more efficiently than host mRNAs; rather, virus translation dominates host translation at later time points due to high levels of virus transcripts. Triplet phasing of the profiling data allowed precise determination of translated reading frames and revealed several translated short open reading frames upstream of, or embedded within, known virus protein-coding regions. Ribosome pause sites were identified in the virus replicase polyprotein pp1a ORF and investigated experimentally. Contrary to expectations, ribosomes were not found to pause at the

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...

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...

Flood extent and water level estimation from SAR using data-model integration

Science.gov (United States)

Ajadi, O. A.; Meyer, F. J.

2017-12-01

Synthetic Aperture Radar (SAR) images have long been recognized as a valuable data source for flood mapping. Compared to other sources, SAR's weather and illumination independence and large area coverage at high spatial resolution supports reliable, frequent, and detailed observations of developing flood events. Accordingly, SAR has the potential to greatly aid in the near real-time monitoring of natural hazards, such as flood detection, if combined with automated image processing. This research works towards increasing the reliability and temporal sampling of SAR-derived flood hazard information by integrating information from multiple SAR sensors and SAR modalities (images and Interferometric SAR (InSAR) coherence) and by combining SAR-derived change detection information with hydrologic and hydraulic flood forecast models. First, the combination of multi-temporal SAR intensity images and coherence information for generating flood extent maps is introduced. The application of least-squares estimation integrates flood information from multiple SAR sensors, thus increasing the temporal sampling. SAR-based flood extent information will be combined with a Digital Elevation Model (DEM) to reduce false alarms and to estimate water depth and flood volume. The SAR-based flood extent map is assimilated into the Hydrologic Engineering Center River Analysis System (Hec-RAS) model to aid in hydraulic model calibration. The developed technology is improving the accuracy of flood information by exploiting information from data and models. It also provides enhanced flood information to decision-makers supporting the response to flood extent and improving emergency relief efforts.

Estimating Elevation Angles From SAR Crosstalk

Science.gov (United States)

Freeman, Anthony

1994-01-01

Scheme for processing polarimetric synthetic-aperture-radar (SAR) image data yields estimates of elevation angles along radar beam to target resolution cells. By use of estimated elevation angles, measured distances along radar beam to targets (slant ranges), and measured altitude of aircraft carrying SAR equipment, one can estimate height of target terrain in each resolution cell. Monopulselike scheme yields low-resolution topographical data.

SAR calculation using FDTD simulations

OpenAIRE

Ferro, Francisco Nabais; Pinto, Guilherme Taveira; Pinho, Pedro

2009-01-01

The main intend of this work, is to determinate the Specific Absorption Rate (SAR) on human head tissues exposed to radiation caused by sources of 900 and 1800MHz, since those are the typical frequencies for mobile communications systems nowadays. In order to determinate the SAR, has been used the FDTD (Finite Difference Time Domain), which is a numeric method in time domain, obtained from the Maxwell equations in differential mode. In order to do this, a computational model from the human he...

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.

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.

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.

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.

Relevant Scatterers Characterization in SAR Images

Science.gov (United States)

Chaabouni, Houda; Datcu, Mihai

2006-11-01

Recognizing scenes in a single look meter resolution Synthetic Aperture Radar (SAR) images, requires the capability to identify relevant signal signatures in condition of variable image acquisition geometry, arbitrary objects poses and configurations. Among the methods to detect relevant scatterers in SAR images, we can mention the internal coherence. The SAR spectrum splitted in azimuth generates a series of images which preserve high coherence only for particular object scattering. The detection of relevant scatterers can be done by correlation study or Independent Component Analysis (ICA) methods. The present article deals with the state of the art for SAR internal correlation analysis and proposes further extensions using elements of inference based on information theory applied to complex valued signals. The set of azimuth looks images is analyzed using mutual information measures and an equivalent channel capacity is derived. The localization of the "target" requires analysis in a small image window, thus resulting in imprecise estimation of the second order statistics of the signal. For a better precision, a Hausdorff measure is introduced. The method is applied to detect and characterize relevant objects in urban areas.

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

Energy Technology Data Exchange (ETDEWEB)

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

Inhibition of severe acute respiratory syndrome coronavirus replication in a lethal SARS-CoV BALB/c mouse model by stinging nettle lectin, Urtica dioica agglutinin.

Science.gov (United States)

Kumaki, Yohichi; Wandersee, Miles K; Smith, Aaron J; Zhou, Yanchen; Simmons, Graham; Nelson, Nathan M; Bailey, Kevin W; Vest, Zachary G; Li, Joseph K-K; Chan, Paul Kay-Sheung; Smee, Donald F; Barnard, Dale L

2011-04-01

Urtica dioica agglutinin (UDA) is a small plant monomeric lectin, 8.7 kDa in size, with an N-acetylglucosamine specificity that inhibits viruses from Nidovirales in vitro. In the current study, we first examined the efficacy of UDA on the replication of different SARS-CoV strains in Vero 76 cells. UDA inhibited virus replication in a dose-dependent manner and reduced virus yields of the Urbani strain by 90% at 1.1 ± 0.4 μg/ml in Vero 76 cells. Then, UDA was tested for efficacy in a lethal SARS-CoV-infected BALB/c mouse model. BALB/c mice were infected with two LD50 (575 PFU) of virus for 4 h before the mice were treated intraperitoneally with UDA at 20, 10, 5 or 0 mg/kg/day for 4 days. Treatment with UDA at 5 mg/kg significantly protected the mice against a lethal infection with mouse-adapted SARS-CoV (p < 0.001), but did not significantly reduce virus lung titers. All virus-infected mice receiving UDA treatments were also significantly protected against weight loss (p < 0.001). UDA also effectively reduced lung pathology scores. At day 6 after virus exposure, all groups of mice receiving UDA had much lower lung weights than did the placebo-treated mice. Thus, our data suggest that UDA treatment of SARS infection in mice leads to a substantial therapeutic effect that protects mice against death and weight loss. Furthermore, the mode of action of UDA in vitro was further investigated using live SARS-CoV Urbani strain virus and retroviral particles pseudotyped with SARS-CoV spike (S). UDA specifically inhibited the replication of live SARS-CoV or SARS-CoV pseudotyped virus when added just before, but not after, adsorption. These data suggested that UDA likely inhibits SARS-CoV infection by targeting early stages of the replication cycle, namely, adsorption or penetration. In addition, we demonstrated that UDA neutralizes the virus infectivity, presumably by binding to the SARS-CoV spike (S) glycoprotein. Finally, the target molecule for the inhibition of virus

Feline and Canine Coronaviruses: Common Genetic and Pathobiological Features

Directory of Open Access Journals (Sweden)

Sophie Le Poder

2011-01-01

Full Text Available A new human coronavirus responsible for severe acute respiratory syndrome (SARS was identified in 2003, which raised concern about coronaviruses as agents of serious infectious disease. Nevertheless, coronaviruses have been known for about 50 years to be major agents of respiratory, enteric, or systemic infections of domestic and companion animals. Feline and canine coronaviruses are widespread among dog and cat populations, sometimes leading to the fatal diseases known as feline infectious peritonitis (FIP and pantropic canine coronavirus infection in cats and dogs, respectively. In this paper, different aspects of the genetics, host cell tropism, and pathogenesis of the feline and canine coronaviruses (FCoV and CCoV will be discussed, with a view to illustrating how study of FCoVs and CCoVs can improve our general understanding of the pathobiology of coronaviruses.

An analytical solution for improved HIFU SAR estimation

International Nuclear Information System (INIS)

Dillon, C R; Vyas, U; Christensen, D A; Roemer, R B; Payne, A

2012-01-01

Accurate determination of the specific absorption rates (SARs) present during high intensity focused ultrasound (HIFU) experiments and treatments provides a solid physical basis for scientific comparison of results among HIFU studies and is necessary to validate and improve SAR predictive software, which will improve patient treatment planning, control and evaluation. This study develops and tests an analytical solution that significantly improves the accuracy of SAR values obtained from HIFU temperature data. SAR estimates are obtained by fitting the analytical temperature solution for a one-dimensional radial Gaussian heating pattern to the temperature versus time data following a step in applied power and evaluating the initial slope of the analytical solution. The analytical method is evaluated in multiple parametric simulations for which it consistently (except at high perfusions) yields maximum errors of less than 10% at the center of the focal zone compared with errors up to 90% and 55% for the commonly used linear method and an exponential method, respectively. For high perfusion, an extension of the analytical method estimates SAR with less than 10% error. The analytical method is validated experimentally by showing that the temperature elevations predicted using the analytical method's SAR values determined for the entire 3D focal region agree well with the experimental temperature elevations in a HIFU-heated tissue-mimicking phantom. (paper)

Association of acute adverse effects with high local SAR induced in the brain from prolonged RF head and neck hyperthermia

International Nuclear Information System (INIS)

Adibzadeh, F; Verhaart, R F; Rijnen, Z; Franckena, M; Van Rhoon, G C; Paulides, M M; Verduijn, G M; Fortunati, V

2015-01-01

To provide an adequate level of protection for humans from exposure to radio-frequency (RF) electromagnetic fields (EMF) and to assure that any adverse health effects are avoided. The basic restrictions in terms of the specific energy absorption rate (SAR) were prescribed by IEEE and ICNIRP. An example of a therapeutic application of non-ionizing EMF is hyperthermia (HT), in which intense RF energy is focused at a target region. Deep HT in the head and neck (H and N) region involves inducing energy at 434 MHz for 60 min on target. Still, stray exposure of the brain is considerable, but to date only very limited side-effects were observed. The objective of this study is to investigate the stringency of the current basic restrictions by relating the induced EM dose in the brain of patients treated with deep head and neck (H and N) HT to the scored acute health effects. We performed a simulation study to calculate the induced peak 10 g spatial-averaged SAR (psSAR 10g ) in the brains of 16 selected H and N patients who received the highest SAR exposure in the brain, i.e. who had the minimum brain-target distance and received high forwarded power during treatment. The results show that the maximum induced SAR in the brain of the patients can exceed the current basic restrictions (IEEE and ICNIRP) on psSAR 10g for occupational environments by 14 times. Even considering the high local SAR in the brain, evaluation of acute effects by the common toxicity criteria (CTC) scores revealed no indication of a serious acute neurological effect. In addition, this study provides pioneering quantitative human data on the association between maximum brain SAR level and acute adverse effects when brains are exposed to prolonged RF EMF. (paper)

Relations of SARS-Related Stressors and Coping to Chinese College Students' Psychological Adjustment during the 2003 Beijing SARS Epidemic

Science.gov (United States)

Main, Alexandra; Zhou, Qing; Ma, Yue; Luecken, Linda J.; Liu, Xin

2011-01-01

This study examined the main and interactive relations of stressors and coping related to severe acute respiratory syndrome (SARS) with Chinese college students' psychological adjustment (psychological symptoms, perceived general health, and life satisfaction) during the 2003 Beijing SARS epidemic. All the constructs were assessed by self-report…

Scattering Mechanism Extraction by a Modified Cloude-Pottier Decomposition for Dual Polarization SAR

Directory of Open Access Journals (Sweden)

Kefeng Ji

2015-06-01

Full Text Available Dual polarization is a typical operational mode of polarimetric synthetic aperture radar (SAR. However, few studies have considered the scattering mechanism extraction of dual-polarization SARs. A modified Cloude-Pottier decomposition is proposed to investigate the performance of the scattering mechanism extraction of dual-polarization SARs. It is theoretically demonstrated that only HH-VV SAR can discriminate the three canonical scattering mechanisms from an isotropic surface, horizontal dipole, and isotropic dihedral. Various experiments are conducted using 21 scenes from real datasets acquired by AIRSAR, Convair-580 SAR, EMISAR, E-SAR, Pi-SAR, and RADARSAT-2. Division of the dual-polarization H-α plane is experimentally obtained. The lack of cross-polarization induces the diffusion of scattering mechanisms and their overlap in the HH-VV H-α plane. However, the performance of HH-VV SAR for extracting scattering mechanisms is acceptable. Thus, HH-VV SAR is a suitable alternative to full-polarization SAR in certain cases. Meanwhile, the extraction performance of the other two dual-polarization SARs is badly degraded due to the lack of co-polarization. Therefore, HH-HV and HV-VV SARs cannot effectively extract the scattering mechanisms in the H-α plane.

A novel pancoronavirus RT-PCR assay: frequent detection of human coronavirus NL63 in children hospitalized with respiratory tract infections in Belgium

Directory of Open Access Journals (Sweden)

Berkhout Ben

2005-02-01

Full Text Available Abstract Background Four human coronaviruses are currently known to infect the respiratory tract: human coronaviruses OC43 (HCoV-OC43 and 229E (HCoV-229E, SARS associated coronavirus (SARS-CoV and the recently identified human coronavirus NL63 (HCoV-NL63. In this study we explored the incidence of HCoV-NL63 infection in children diagnosed with respiratory tract infections in Belgium. Methods Samples from children hospitalized with respiratory diseases during the winter seasons of 2003 and 2004 were evaluated for the presence of HCoV-NL63 using a optimized pancoronavirus RT-PCR assay. Results Seven HCoV-NL63 positive samples were identified, six were collected during January/February 2003 and one at the end of February 2004. Conclusions Our results support the notation that HCoV-NL63 can cause serious respiratory symptoms in children. Sequence analysis of the S gene showed that our isolates could be classified into two subtypes corresponding to the two prototype HCoV-NL63 sequences isolated in The Netherlands in 1988 and 2003, indicating that these two subtypes may currently be cocirculating.

AUTOMATIC COREGISTRATION FOR MULTIVIEW SAR IMAGES IN URBAN AREAS

Directory of Open Access Journals (Sweden)

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.

Applications of SAR Interferometry in Earth and Environmental Science Research.

Science.gov (United States)

Zhou, Xiaobing; Chang, Ni-Bin; Li, Shusun

2009-01-01

This paper provides a review of the progress in regard to the InSAR remote sensing technique and its applications in earth and environmental sciences, especially in the past decade. Basic principles, factors, limits, InSAR sensors, available software packages for the generation of InSAR interferograms were summarized to support future applications. Emphasis was placed on the applications of InSAR in seismology, volcanology, land subsidence/uplift, landslide, glaciology, hydrology, and forestry sciences. It ends with a discussion of future research directions.

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

Directory of Open Access Journals (Sweden)

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.

SARS Risk Perception, Knowledge, Precautions, and Information Sources, the Netherlands

Science.gov (United States)

Aro, Arja R.; Oenema, Anke; de Zwart, Onno; Richardus, Jan Hendrik; Bishop, George D.

2004-01-01

Severe acute respiratory syndrome (SARS)–related risk perceptions, knowledge, precautionary actions, and information sources were studied in the Netherlands during the 2003 SARS outbreak. Although respondents were highly aware of the SARS outbreak, the outbreak did not result in unnecessary precautionary actions or fears. PMID:15496256

Genomic characterization of severe acute respiratory syndrome-related coronavirus in European bats and classification of coronaviruses based on partial RNA-dependent RNA polymerase gene sequences

Czech Academy of Sciences Publication Activity Database

Drexler, J. F.; Gloza-Rausch, F.; Glende, J.; Corman, V. M.; Muth, D.; Goettsche, M.; Seebens, A.; Niedrig, M.; Pfefferle, S.; Yordanov, S.; Zhelyazkov, L.; Hermanns, U.; Vallo, Peter; Lukashev, A.; Müller, M. A.; Deng, H.; Herrler, G.; Drosten, C.

2010-01-01

Roč. 84, č. 21 (2010), s. 11336-11349 ISSN 0022-538X Institutional research plan: CEZ:AV0Z60930519 Keywords : cross-species transmission * SARS-like coronavirus es * reservoir hosts * horseshoe bats Subject RIV: EE - Microbiology, Virology Impact factor: 5.189, year: 2010

[Epidemiological perspectives on SARS and avian influenza].

Science.gov (United States)

del Rey Calero, Juan

2004-01-01

SARS is a respiratory infection caused by Coronavirus (Nidoviruses, RNA) from which 3 groups are known. Group 1 affects dogs, cats, pigs, and the human agent is 229 E. Group 2 affects bovines or rodents, and the human agent is OC43. And group 3 corresponds to the avian pathology.... The epidemics emerged on February 2003 in Guangdong, South China, due to consumption of exotic animals (Civeta, etc.), and it spread through interperson contagion to other regions in Asia, America and Europe. Incubation period is about 2-7 days. Transmission Of the virus is person-to person, but also by excretions and residual water. Basic reproductive rate is 2 to 4, and it is considered that 2.7 persons are infected from the initial case. In June 2003, SARS affected over 8,000 people and 774 were killed. Mortality approaches to 10%, and it is higher among older people rising up to 50% in those aged over 65 years. It is important to quickly establish action protocols regarding clinical, epidemiological and prevention aspects. Avian influenza is an infection caused by type A Influenza Orthomixovirus, in which migration birds and wild ducks are the main reservoir. Avian viruses correspond to H5, H7, H9. In 1997 it was observed that type AH5N1 jumped interspecies barrier and affected 18 humans, and 6 of them died. At the end of 2003 and in 2004 this type of poultry flu was described in Asia. FAO has emphasized that sacrifice of chicken in affected farms is the most effective measure to fight against the disease. It has also been established suppression of imports from these countries. There is no evidence on interperson contagion from chicken contagion, nor on food-borne contagion to humans.

SAR antenna design for ambiguity and multipath suppression

DEFF Research Database (Denmark)

Christensen, Erik Lintz; Dich, Mikael

1993-01-01

A high resolution airborne synthetic aperture radar (SAR) has been developed at the Electromagnetics Institute (EMI) for remote sensing applications. The paper considers the radiation of antennas for a SAR system from a systems perspective. The basic specifications of an idealised antenna...... are obtained from the required swath and the azimuth footprint needed for the SAR processing. The radiation from a real antenna causes unwanted signal returns that lead to intensity variations (multipath) and ghost echoes (ambiguity). Additional specifications are deduced by considering these signals...

Monitoring of Land-Surface Deformation in the Karamay Oilfield, Xinjiang, China, Using SAR Interferometry

Directory of Open Access Journals (Sweden)

Yusupujiang Aimaiti

2017-07-01

Full Text Available Synthetic Aperture Radar (SAR interferometry is a technique that provides high-resolution measurements of the ground displacement associated with various geophysical processes. To investigate the land-surface deformation in Karamay, a typical oil-producing city in the Xinjiang Uyghur Autonomous Region, China, Advanced Land Observing Satellite (ALOS Phased Array L-band Synthetic Aperture Radar (PALSAR data were acquired for the period from 2007 to 2009, and a two-pass differential SAR interferometry (D-InSAR process was applied. The experimental results showed that two sites in the north-eastern part of the city exhibit a clear indication of land deformation. For a further evaluation of the D-InSAR result, the Persistent Scatterer (PS and Small Baseline Subset (SBAS-InSAR techniques were applied for 21 time series Environmental Satellite (ENVISAT C-band Advanced Synthetic Aperture Radar (ASAR data from 2003 to 2010. The comparison between the D-InSAR and SBAS-InSAR measurements had better agreement than that from the PS-InSAR measurement. The maximum deformation rate attributed to subsurface water injection for the period from 2003 to 2010 was up to approximately 33 mm/year in the line of sight (LOS direction. The interferometric phase change from November 2007 to June 2010 showed a clear deformation pattern, and the rebound center has been expanding in scale and increasing in quantity.

Analysis on Vertical Scattering Signatures in Forestry with PolInSAR

Science.gov (United States)

Guo, Shenglong; Li, Yang; Zhang, Jingjing; Hong, Wen

2014-11-01

We apply accurate topographic phase to the Freeman-Durden decomposition for polarimetric SAR interferometry (PolInSAR) data. The cross correlation matrix obtained from PolInSAR observations can be decomposed into three scattering mechanisms matrices accounting for the odd-bounce, double-bounce and volume scattering. We estimate the phase based on the Random volume over Ground (RVoG) model, and as the initial input parameter of the numerical method which is used to solve the parameters of decomposition. In addition, the modified volume scattering model introduced by Y. Yamaguchi is applied to the PolInSAR target decomposition in forest areas rather than the pure random volume scattering as proposed by Freeman-Durden to make best fit to the actual measured data. This method can accurately retrieve the magnitude associated with each mechanism and their vertical location along the vertical dimension. We test the algorithms with L- and P- band simulated data.

Advanced InSAR imaging for dune mapping

Science.gov (United States)

Havivi, Shiran; August, Yitzhak; Blumberg, Dan G.; Rotman, Stanley R.

2015-04-01

Aeolian morphologies are formed in the presence of sufficient wind energy and available particles. These processes occur naturally or are further enhanced or reduced by human intervention. The dimensions of change are dependent primarily on the wind energy and surface properties. Since the 1970's, remote sensing imagery both optical and radar, are used for documentation and interpretation of the geomorphologic changes of sand dunes. Remote sensing studies of Aeolian morphologies is mostly useful to document major changes, yet, subtle changes, occurring in a period of days or months in scales of centimeters, are very difficult to detect in imagery. Interferometric Synthetic Aperture Radar (InSAR) is an imaging technique for measuring Earth's surface topography and deformation. InSAR images are produced by measuring the radar phase difference between two separated antennas that view the same surface area. Classical InSAR is based on high coherence between two images or more. The output (interferogram) can show subtle changes with an accuracy of several millimeters to centimeters. Very little work has been done on measuring or identifying the changes in dunes using InSAR. The reason is that dunes tend to be less coherent than firm, stable, surfaces. This research aims to demonstrate how interferometric decorrelation, or, coherence change detection, can be used for identifying dune instability. We hypothesize and demonstrate that the loss of radar coherence over time on dunes can be used as an indication of the dune's instability. When SAR images are acquired at sufficiently close intervals one can measure the time it takes to lose coherence and associate this time with geomorphic stability. To achieve our goals, the Nitzanim coastal dunes along the Mediterranean, 40 km south of Tel-Aviv, Israel, were chosen as a case study. The dunes in this area are of varying levels of stability and vegetation cover and have been monitored meteorologically, geomorphologically and

Research on Airborne SAR Imaging Based on Esc Algorithm

Science.gov (United States)

Dong, X. T.; Yue, X. J.; Zhao, Y. H.; Han, C. M.

2017-09-01

Due to the ability of flexible, accurate, and fast obtaining abundant information, airborne SAR is significant in the field of Earth Observation and many other applications. Optimally the flight paths are straight lines, but in reality it is not the case since some portion of deviation from the ideal path is impossible to avoid. A small disturbance from the ideal line will have a major effect on the signal phase, dramatically deteriorating the quality of SAR images and data. Therefore, to get accurate echo information and radar images, it is essential to measure and compensate for nonlinear motion of antenna trajectories. By means of compensating each flying trajectory to its reference track, MOCO method corrects linear phase error and quadratic phase error caused by nonlinear antenna trajectories. Position and Orientation System (POS) data is applied to acquiring accuracy motion attitudes and spatial positions of antenna phase centre (APC). In this paper, extend chirp scaling algorithm (ECS) is used to deal with echo data of airborne SAR. An experiment is done using VV-Polarization raw data of C-band airborne SAR. The quality evaluations of compensated SAR images and uncompensated SAR images are done in the experiment. The former always performs better than the latter. After MOCO processing, azimuth ambiguity is declined, peak side lobe ratio (PSLR) effectively improves and the resolution of images is improved obviously. The result shows the validity and operability of the imaging process for airborne SAR.

RESEARCH ON AIRBORNE SAR IMAGING BASED ON ESC ALGORITHM

Directory of Open Access Journals (Sweden)

X. T. Dong

2017-09-01

Full Text Available Due to the ability of flexible, accurate, and fast obtaining abundant information, airborne SAR is significant in the field of Earth Observation and many other applications. Optimally the flight paths are straight lines, but in reality it is not the case since some portion of deviation from the ideal path is impossible to avoid. A small disturbance from the ideal line will have a major effect on the signal phase, dramatically deteriorating the quality of SAR images and data. Therefore, to get accurate echo information and radar images, it is essential to measure and compensate for nonlinear motion of antenna trajectories. By means of compensating each flying trajectory to its reference track, MOCO method corrects linear phase error and quadratic phase error caused by nonlinear antenna trajectories. Position and Orientation System (POS data is applied to acquiring accuracy motion attitudes and spatial positions of antenna phase centre (APC. In this paper, extend chirp scaling algorithm (ECS is used to deal with echo data of airborne SAR. An experiment is done using VV-Polarization raw data of C-band airborne SAR. The quality evaluations of compensated SAR images and uncompensated SAR images are done in the experiment. The former always performs better than the latter. After MOCO processing, azimuth ambiguity is declined, peak side lobe ratio (PSLR effectively improves and the resolution of images is improved obviously. The result shows the validity and operability of the imaging process for airborne SAR.

Applications of SAR Interferometry in Earth and Environmental Science Research

Science.gov (United States)

Zhou, Xiaobing; Chang, Ni-Bin; Li, Shusun

2009-01-01

This paper provides a review of the progress in regard to the InSAR remote sensing technique and its applications in earth and environmental sciences, especially in the past decade. Basic principles, factors, limits, InSAR sensors, available software packages for the generation of InSAR interferograms were summarized to support future applications. Emphasis was placed on the applications of InSAR in seismology, volcanology, land subsidence/uplift, landslide, glaciology, hydrology, and forestry sciences. It ends with a discussion of future research directions. PMID:22573992

Applications of SAR Interferometry in Earth and Environmental Science Research

Directory of Open Access Journals (Sweden)

Xiaobing Zhou

2009-03-01

Full Text Available This paper provides a review of the progress in regard to the InSAR remote sensing technique and its applications in earth and environmental sciences, especially in the past decade. Basic principles, factors, limits, InSAR sensors, available software packages for the generation of InSAR interferograms were summarized to support future applications. Emphasis was placed on the applications of InSAR in seismology, volcanology, land subsidence/uplift, landslide, glaciology, hydrology, and forestry sciences. It ends with a discussion of future research directions.

Evaluation of the Wishart test statistics for polarimetric SAR data

DEFF Research Database (Denmark)

Skriver, Henning; Nielsen, Allan Aasbjerg; Conradsen, Knut

2003-01-01

A test statistic for equality of two covariance matrices following the complex Wishart distribution has previously been used in new algorithms for change detection, edge detection and segmentation in polarimetric SAR images. Previously, the results for change detection and edge detection have been...... quantitatively evaluated. This paper deals with the evaluation of segmentation. A segmentation performance measure originally developed for single-channel SAR images has been extended to polarimetric SAR images, and used to evaluate segmentation for a merge-using-moment algorithm for polarimetric SAR data....

Mapping Regional Inundation with Spaceborne L-Band SAR

Directory of Open Access Journals (Sweden)

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.

New challenges for a SAR toolbox

International Nuclear Information System (INIS)

Loreaux, P.; Quin, G.

2013-01-01

High resolution multi-frequency synthetic aperture radar (SAR) imagery, available since early 2008, brings all weather capability and day/night operability in support of safeguards verification. Today, a combined approach of high resolution optical and radar imagery in monitoring exercise would enable looking at any area of interest on daily basis. One of the challenges is the co-registration of SAR images acquired with different acquisition mode and also with different optical images. We show in this paper the on-going research work to find a general co-register method and an automatic tool to detect changes. Before having an operational co-register tool, a method to find automatically tie points between SAR images acquired with different acquisition mode and with optical images has to be developed. Concerning an automatic change detection method we can conclude that the study of the Harmonic mean, Geometric mean and Arithmetic mean, enables several applications like change detection for SAR imagery. Thus, we developed the MAGMA (Method for Arithmetic and Geometric Means Analysis) change detection method. As shown in this paper, the MAGMA method improves the Maximum Likelihood techniques like GLRT, using Information-Theory concepts to detect changes between SAR amplitude images. The major improvement consists in a lower false detection rate, especially in low amplitude areas. The second improvement consists in a better location of the changes in clearly delimited areas, which enables precise interpretations. Results presented here reveal the potential of high resolution radar imagery for a baseline description of some sites, change detection based on repeat pass imagery acquisitions and site specific constraints in coherent change detection due to cover conditions. (A.C.)

Detection of macroalgae blooms by complex SAR imagery

International Nuclear Information System (INIS)

Shen, Hui; Perrie, William; Liu, Qingrong; He, Yijun

2014-01-01

Highlights: • Complex SAR imagery enables better recognition of macroalgae patches. • Combination of different information in SAR matrix forms new index factors. • Proposed index factors contribute to unsupervised recognition of macroalgae. -- Abstract: Increased frequency and enhanced damage to the marine environment and to human society caused by green macroalgae blooms demand improved high-resolution early detection methods. Conventional satellite remote sensing methods via spectra radiometers do not work in cloud-covered areas, and therefore cannot meet these demands for operational applications. We present a methodology for green macroalgae bloom detection based on RADARSAT-2 synthetic aperture radar (SAR) images. Green macroalgae patches exhibit different polarimetric characteristics compared to the open ocean surface, in both the amplitude and phase domains of SAR-measured complex radar backscatter returns. In this study, new index factors are defined which have opposite signs in green macroalgae-covered areas, compared to the open water surface. These index factors enable unsupervised detection from SAR images, providing a high-resolution new tool for detection of green macroalgae blooms, which can potentially contribute to a better understanding of the mechanisms related to outbreaks of green macroalgae blooms in coastal areas throughout the world ocean

Wavelet Filter Banks for Super-Resolution SAR Imaging

Science.gov (United States)

Sheybani, Ehsan O.; Deshpande, Manohar; Memarsadeghi, Nargess

2011-01-01

This paper discusses Innovative wavelet-based filter banks designed to enhance the analysis of super resolution Synthetic Aperture Radar (SAR) images using parametric spectral methods and signal classification algorithms, SAR finds applications In many of NASA's earth science fields such as deformation, ecosystem structure, and dynamics of Ice, snow and cold land processes, and surface water and ocean topography. Traditionally, standard methods such as Fast-Fourier Transform (FFT) and Inverse Fast-Fourier Transform (IFFT) have been used to extract Images from SAR radar data, Due to non-parametric features of these methods and their resolution limitations and observation time dependence, use of spectral estimation and signal pre- and post-processing techniques based on wavelets to process SAR radar data has been proposed. Multi-resolution wavelet transforms and advanced spectral estimation techniques have proven to offer efficient solutions to this problem.

INVENTORY OF IRRIGATED RICE ECOSYSTEM USING POLARIMETRIC SAR DATA

Directory of Open Access Journals (Sweden)

P. Srikanth

2012-08-01

Full Text Available An attempt has been made in the current study to assess the potential of polarimetric SAR data for inventory of kharif rice and the major competing crop like cotton. In the process, physical process of the scattering mechanisms occurring in rice and cotton crops at different phonological stages was studied through the use of temporal Radarsat 2 Fine quadpol SAR data. The temporal dynamics of the volume, double and odd bounce, entropy, anisotropy, alpha parameters and polarimertic signatures, classification through isodata clustering and Wishart techniques were assessed. The Wishart (H-a classification showed higher overall as well as rice and cotton crop accuracies compared to the isodata clustering from Freeman 3-component decomposition. The classification of temporal SAR data sets independently showed that the rice crop forecasting can be advanced with the use of appropriate single date polarimetric SAR data rather than using temporal SAR amplitude data sets with the single polarization in irrigated rice ecosystems

Guided SAR image despeckling with probabilistic non local weights

Science.gov (United States)

Gokul, Jithin; Nair, Madhu S.; Rajan, Jeny

2017-12-01

SAR images are generally corrupted by granular disturbances called speckle, which makes visual analysis and detail extraction a difficult task. Non Local despeckling techniques with probabilistic similarity has been a recent trend in SAR despeckling. To achieve effective speckle suppression without compromising detail preservation, we propose an improvement for the existing Generalized Guided Filter with Bayesian Non-Local Means (GGF-BNLM) method. The proposed method (Guided SAR Image Despeckling with Probabilistic Non Local Weights) replaces parametric constants based on heuristics in GGF-BNLM method with dynamically derived values based on the image statistics for weight computation. Proposed changes make GGF-BNLM method adaptive and as a result, significant improvement is achieved in terms of performance. Experimental analysis on SAR images shows excellent speckle reduction without compromising feature preservation when compared to GGF-BNLM method. Results are also compared with other state-of-the-art and classic SAR depseckling techniques to demonstrate the effectiveness of the proposed method.

Prototype Theory Based Feature Representation for PolSAR Images

OpenAIRE

Huang Xiaojing; Yang Xiangli; Huang Pingping; Yang Wen

2016-01-01

This study presents a new feature representation approach for Polarimetric Synthetic Aperture Radar (PolSAR) image based on prototype theory. First, multiple prototype sets are generated using prototype theory. Then, regularized logistic regression is used to predict similarities between a test sample and each prototype set. Finally, the PolSAR image feature representation is obtained by ensemble projection. Experimental results of an unsupervised classification of PolSAR images show that our...

One carbon metabolism in SAR11 pelagic marine bacteria.

Directory of Open Access Journals (Sweden)

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.

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.

Screening of an FDA-approved compound library identifies four small-molecule inhibitors of Middle East respiratory syndrome coronavirus replication in cell culture

NARCIS (Netherlands)

A.H. de Wilde (Adriaan); D. Jochmans (Dirk); C.C. Posthuma (Clara); J.C. Zevenhoven-Dobbe (Jessika); S. van Nieuwkoop (Stefan); T.M. Bestebroer (Theo); B.G. van den Hoogen (Bernadette); J. Neyts; E.J. Snijder (Eric)

2014-01-01

textabstractCoronaviruses can cause respiratory and enteric disease in a wide variety of human and animal hosts. The 2003 outbreak of severe acute respiratory syndrome (SARS) first demonstrated the potentially lethal consequences of zoonotic coronavirus infections in humans. In 2012, a similar

Comparison of SAR calculation algorithms for the finite-difference time-domain method

International Nuclear Information System (INIS)

Laakso, Ilkka; Uusitupa, Tero; Ilvonen, Sami

2010-01-01

Finite-difference time-domain (FDTD) simulations of specific-absorption rate (SAR) have several uncertainty factors. For example, significantly varying SAR values may result from the use of different algorithms for determining the SAR from the FDTD electric field. The objective of this paper is to rigorously study the divergence of SAR values due to different SAR calculation algorithms and to examine if some SAR calculation algorithm should be preferred over others. For this purpose, numerical FDTD results are compared to analytical solutions in a one-dimensional layered model and a three-dimensional spherical object. Additionally, the implications of SAR calculation algorithms for dosimetry of anatomically realistic whole-body models are studied. The results show that the trapezium algorithm-based on the trapezium integration rule-is always conservative compared to the analytic solution, making it a good choice for worst-case exposure assessment. In contrast, the mid-ordinate algorithm-named after the mid-ordinate integration rule-usually underestimates the analytic SAR. The linear algorithm-which is approximately a weighted average of the two-seems to be the most accurate choice overall, typically giving the best fit with the shape of the analytic SAR distribution. For anatomically realistic models, the whole-body SAR difference between different algorithms is relatively independent of the used body model, incident direction and polarization of the plane wave. The main factors affecting the difference are cell size and frequency. The choice of the SAR calculation algorithm is an important simulation parameter in high-frequency FDTD SAR calculations, and it should be explained to allow intercomparison of the results between different studies. (note)

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.

Delta-proteobacterial SAR324 group in hydrothermal plumes on the South Mid-Atlantic Ridge

KAUST Repository

Cao, Huiluo

2016-03-08

In the dark ocean, the SAR324 group of Delta-proteobacteria has been associated with a chemolithotrophic lifestyle. However, their electron transport chain for energy generation and information system has not yet been well characterized. In the present study, four SAR324 draft genomes were extracted from metagenomes sampled from hydrothermal plumes in the South Mid-Atlantic Ridge. We describe novel electron transport chain components in the SAR324 group, particularly the alternative complex III, which is involved in energy generation. Moreover, we propose that the C-type cytochrome, for example the C553, may play a novel role in electron transfer, adding to our knowledge regarding the energy generation process in the SAR324 cluster. The central carbon metabolism in the described SAR324 genomes exhibits several new features other than methanotrophy e.g. aromatic compound degradation. This suggests that methane oxidation may not be the main central carbon metabolism component in SAR324 cluster bacteria. The reductive acetyl-CoA pathway may potentially be essential in carbon fixation due to the absence of components from the Calvin-Benson cycle. Our study provides insight into the role of recombination events in shaping the genome of the SAR324 group based on a larger number of repeat regions observed, which has been overlooked thus far.

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

Analysis of Spatiotemporal Characteristics of Pandemic SARS Spread in Mainland China.

Science.gov (United States)

Cao, Chunxiang; Chen, Wei; Zheng, Sheng; Zhao, Jian; Wang, Jinfeng; Cao, Wuchun

2016-01-01

Severe acute respiratory syndrome (SARS) is one of the most severe emerging infectious diseases of the 21st century so far. SARS caused a pandemic that spread throughout mainland China for 7 months, infecting 5318 persons in 194 administrative regions. Using detailed mainland China epidemiological data, we study spatiotemporal aspects of this person-to-person contagious disease and simulate its spatiotemporal transmission dynamics via the Bayesian Maximum Entropy (BME) method. The BME reveals that SARS outbreaks show autocorrelation within certain spatial and temporal distances. We use BME to fit a theoretical covariance model that has a sine hole spatial component and exponential temporal component and obtain the weights of geographical and temporal autocorrelation factors. Using the covariance model, SARS dynamics were estimated and simulated under the most probable conditions. Our study suggests that SARS transmission varies in its epidemiological characteristics and SARS outbreak distributions exhibit palpable clusters on both spatial and temporal scales. In addition, the BME modelling demonstrates that SARS transmission features are affected by spatial heterogeneity, so we analyze potential causes. This may benefit epidemiological control of pandemic infectious diseases.

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...

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.

Methodology of dose calculation for the SRS SAR

International Nuclear Information System (INIS)

Price, J.B.

1991-07-01

The Savannah River Site (SRS) Safety Analysis Report (SAR) covering K reactor operation assesses a spectrum of design basis accidents. The assessment includes estimation of the dose consequences from the analyzed accidents. This report discusses the methodology used to perform the dose analysis reported in the SAR and also includes the quantified doses. Doses resulting from postulated design basis reactor accidents in Chapter 15 of the SAR are discussed, as well as an accident in which three percent of the fuel melts. Doses are reported for both atmospheric and aqueous releases. The methodology used to calculate doses from these accidents as reported in the SAR is consistent with NRC guidelines and industry standards. The doses from the design basis accidents for the SRS reactors are below the limits set for commercial reactors by the NRC and also meet industry criteria. A summary of doses for various postulated accidents is provided

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

The present paper considers polarimetric SAR wind vector applications. Remote-sensing measurements of the near-surface wind over the ocean are of great importance for the understanding of atmosphere-ocean interaction. In recent years investigations for wind vector retrieval using Synthetic Aperture Radar (SAR) data have been performed. In contrast with scatterometers, a SAR has a finer spatial resolution that makes it a more suitable microwave instrument to explore wind conditions in the marginal ice zones, coastal regions and lakes. The wind speed retrieval procedure from scatterometer data matches the measured radar backscattering signal with the geophysical model function (GMF). The GMF determines the radar cross section dependence on the wind speed and direction with respect to the azimuthal angle of the radar beam. Scatterometers provide information on wind speed and direction simultaneously due to the fact that each wind vector cell (WVC) is observed at several azimuth angles. However, SAR is not designed to be used as a high resolution scatterometer. In this case, each WVC is observed at only one single azimuth angle. That is why for wind vector determination additional information such as wind streak orientation over the sea surface is required. It is shown that the wind vector can be obtained using polarimetric SAR without additional information. The main idea is to analyze the spectrum of a homogeneous SAR image area instead of the backscattering normalized radar cross section. Preliminary numerical simulations revealed that SAR image spectral maxima positions depend on the wind vector. Thus the following method for wind speed retrieval is proposed. In the first stage of the algorithm, the SAR spectrum maxima are determined. This procedure is carried out to estimate the wind speed and direction with ambiguities separated by 180 degrees due to the SAR spectrum symmetry. The second stage of the algorithm allows us to select the correct wind direction

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.

Demonstrator for Automatic Target Classification in SAR Imagery

NARCIS (Netherlands)

Wit, J.J.M. de; Broek, A.C. van den; Dekker, R.J.

2006-01-01

Due to the increasing use of unmanned aerial vehicles (UAV) for reconnaissance, surveillance, and target acquisition applications, the interest in synthetic aperture radar (SAR) systems is growing. In order to facilitate the processing of the enormous amount of SAR data on the ground, automatic

SAR image effects on coherence and coherence estimation.

Energy Technology Data Exchange (ETDEWEB)

Bickel, Douglas Lloyd

2014-01-01

Radar coherence is an important concept for imaging radar systems such as synthetic aperture radar (SAR). This document quantifies some of the effects in SAR which modify the coherence. Although these effects can disrupt the coherence within a single SAR image, this report will focus on the coherence between separate images, such as for coherent change detection (CCD) processing. There have been other presentations on aspects of this material in the past. The intent of this report is to bring various issues that affect the coherence together in a single report to support radar engineers in making decisions about these matters.

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

Severe acute respiratory syndrome--a new coronavirus from the Chinese dragon's lair

DEFF Research Database (Denmark)

Knudsen, T B; Kledal, T N; Andersen, O

2003-01-01

current worldwide distribution. The concerted efforts of a globally united scientific community have led to the independent isolation and identification of a novel coronavirus from SARS patients by several groups. The extraordinarily rapid isolation of a causative agent of this newly emerged infectious...

Fast Superpixel Segmentation Algorithm for PolSAR Images

Directory of Open Access Journals (Sweden)

Zhang Yue

2017-10-01

Full Text Available As a pre-processing technique, superpixel segmentation algorithms should be of high computational efficiency, accurate boundary adherence and regular shape in homogeneous regions. A fast superpixel segmentation algorithm based on Iterative Edge Refinement (IER has shown to be applicable on optical images. However, it is difficult to obtain the ideal results when IER is applied directly to PolSAR images due to the speckle noise and small or slim regions in PolSAR images. To address these problems, in this study, the unstable pixel set is initialized as all the pixels in the PolSAR image instead of the initial grid edge pixels. In the local relabeling of the unstable pixels, the fast revised Wishart distance is utilized instead of the Euclidean distance in CIELAB color space. Then, a post-processing procedure based on dissimilarity measure is empolyed to remove isolated small superpixels as well as to retain the strong point targets. Finally, extensive experiments based on a simulated image and a real-world PolSAR image from Airborne Synthetic Aperture Radar (AirSAR are conducted, showing that the proposed algorithm, compared with three state-of-the-art methods, performs better in terms of several commonly used evaluation criteria with high computational efficiency, accurate boundary adherence, and homogeneous regularity.

Program Merges SAR Data on Terrain and Vegetation Heights

Science.gov (United States)

Siqueira, Paul; Hensley, Scott; Rodriguez, Ernesto; Simard, Marc

2007-01-01

X/P Merge is a computer program that estimates ground-surface elevations and vegetation heights from multiple sets of data acquired by the GeoSAR instrument [a terrain-mapping synthetic-aperture radar (SAR) system that operates in the X and bands]. X/P Merge software combines data from X- and P-band digital elevation models, SAR backscatter magnitudes, and interferometric correlation magnitudes into a simplified set of output topographical maps of ground-surface elevation and tree height.

Characterization of human coronavirus etiology in Chinese adults with acute upper respiratory tract infection by real-time RT-PCR assays.

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Roujian Lu

Full Text Available BACKGROUND: In addition to SARS associated coronaviruses, 4 non-SARS related human coronaviruses (HCoVs are recognized as common respiratory pathogens. The etiology and clinical impact of HCoVs in Chinese adults with acute upper respiratory tract infection (URTI needs to be characterized systematically by molecular detection with excellent sensitivity. METHODOLOGY/PRINCIPAL FINDINGS: In this study, we detected 4 non-SARS related HCoV species by real-time RT-PCR in 981 nasopharyngeal swabs collected from March 2009 to February 2011. All specimens were also tested for the presence of other common respiratory viruses and newly identified viruses, human metapneumovirus (hMPV and human bocavirus (HBoV. 157 of the 981 (16.0% nasopharyngeal swabs were positive for HCoVs. The species detected were 229E (96 cases, 9.8%, OC43 (42 cases, 4.3%, HKU1 (16 cases, 1.6% and NL63 (11 cases, 1.1%. HCoV-229E was circulated in 21 of the 24 months of surveillance. The detection rates for both OC43 and NL63 were showed significantly year-to-year variation between 2009/10 and 2010/11, respectively (P<0.001 and P = 0.003, and there was a higher detection frequency of HKU1 in patients aged over 60 years (P = 0.03. 48 of 157(30.57% HCoV positive patients were co-infected. Undifferentiated human rhinoviruses and influenza (Flu A were the most common viruses detected (more than 35% in HCoV co-infections. Respiratory syncytial virus (RSV, human parainfluenza virus (PIV and HBoV were detected in very low rate (less than 1% among adult patients with URTI. CONCLUSIONS/SIGNIFICANCE: All 4 non-SARS-associated HCoVs were more frequently detected by real-time RT-PCR assay in adults with URTI in Beijing and HCoV-229E led to the most prevalent infection. Our study also suggested that all non-SARS-associated HCoVs contribute significantly to URTI in adult patients in China.

The Danish (Q)SAR Database Update Project

DEFF Research Database (Denmark)

Nikolov, Nikolai Georgiev; Dybdahl, Marianne; Abildgaard Rosenberg, Sine

2013-01-01

The Danish (Q)SAR Database is a collection of predictions from quantitative structure–activity relationship ((Q)SAR) models for over 70 environmental and human health-related endpoints (covering biodegradation, metabolism, allergy, irritation, endocrine disruption, teratogenicity, mutagenicity......, carcinogenicity and others), each of them available for 185,000 organic substances. The database has been available online since 2005 (http://qsar.food.dtu.dk). A major update project for the Danish (Q)SAR database is under way, with a new online release planned in the beginning of 2015. The updated version...... will contain more than 600,000 discrete organic structures and new, more precise predictions for all endpoints, derived by consensus algorithms from a number of state-of-the-art individual predictions. Copyright © 2013 Published by Elsevier Ireland Ltd....

First Image Products from EcoSAR - Osa Peninsula, Costa Rica

Science.gov (United States)

Osmanoglu, Batuhan; Lee, SeungKuk; Rincon, Rafael; Fatuyinbo, Lola; Bollian, Tobias; Ranson, Jon

2016-01-01

Designed especially for forest ecosystem studies, EcoSAR employs state-of-the-art digital beamforming technology to generate wide-swath, high-resolution imagery. EcoSARs dual antenna single-pass imaging capability eliminates temporal decorrelation from polarimetric and interferometric analysis, increasing the signal strength and simplifying models used to invert forest structure parameters. Antennae are physically separated by 25 meters providing single pass interferometry. In this mode the radar is most sensitive to topography. With 32 active transmit and receive channels, EcoSARs digital beamforming is an order of magnitude more versatile than the digital beamforming employed on the upcoming NISAR mission. EcoSARs long wavelength (P-band, 435 MHz, 69 cm) measurements can be used to simulate data products for ESAs future BIOMASS mission, allowing scientists to develop algorithms before the launch of the satellite. EcoSAR can also be deployed to collect much needed data where BIOMASS satellite wont be allowed to collect data (North America, Europe and Arctic), filling in the gaps to keep a watchful eye on the global carbon cycle. EcoSAR can play a vital role in monitoring, reporting and verification schemes of internationals programs such as UN-REDD (United Nations Reducing Emissions from Deforestation and Degradation) benefiting global society. EcoSAR was developed and flown with support from NASA Earth Sciences Technology Offices Instrument Incubator Program.

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

Research on the method of extracting DEM based on GBInSAR

Science.gov (United States)

Yue, Jianping; Yue, Shun; Qiu, Zhiwei; Wang, Xueqin; Guo, Leping

2016-05-01

Precise topographical information has a very important role in geology, hydrology, natural resources survey and deformation monitoring. The extracting DEM technology based on synthetic aperture radar interferometry (InSAR) obtains the three-dimensional elevation of the target area through the phase information of the radar image data. The technology has large-scale, high-precision, all-weather features. By changing track in the location of the ground radar system up and down, it can form spatial baseline. Then we can achieve the DEM of the target area by acquiring image data from different angles. Three-dimensional laser scanning technology can quickly, efficiently and accurately obtain DEM of target area, which can verify the accuracy of DEM extracted by GBInSAR. But research on GBInSAR in extracting DEM of the target area is a little. For lack of theory and lower accuracy problems in extracting DEM based on GBInSAR now, this article conducted research and analysis on its principle deeply. The article extracted the DEM of the target area, combined with GBInSAR data. Then it compared the DEM obtained by GBInSAR with the DEM obtained by three-dimensional laser scan data and made statistical analysis and normal distribution test. The results showed the DEM obtained by GBInSAR was broadly consistent with the DEM obtained by three-dimensional laser scanning. And its accuracy is high. The difference of both DEM approximately obeys normal distribution. It indicated that extracting the DEM of target area based on GBInSAR is feasible and provided the foundation for the promotion and application of GBInSAR.

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.

Synthetic aperture design for increased SAR image rate

Science.gov (United States)

Bielek, Timothy P [Albuquerque, NM; Thompson, Douglas G [Albuqerque, NM; Walker, Bruce C [Albuquerque, NM

2009-03-03

High resolution SAR images of a target scene at near video rates can be produced by using overlapped, but nevertheless, full-size synthetic apertures. The SAR images, which respectively correspond to the apertures, can be analyzed in sequence to permit detection of movement in the target scene.

The Danish polarimetric SAR for remote sensing applications

DEFF Research Database (Denmark)

Christensen, Erik Lintz; Madsen, Søren Nørvang; Dall, Jørgen

1994-01-01

Presents the Danish polarimetric SAR system, EMISAR, and the approach taken in the system design to achieve a reliable high performance system. The design and implementation of the antenna system as well as the analog and digital hardware are discussed. The SAR utilises a dual polarised microstri...

SEGMENTATION OF POLARIMETRIC SAR IMAGES USIG WAVELET TRANSFORMATION AND TEXTURE FEATURES

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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.

Segmentation of Polarimetric SAR Images Usig Wavelet Transformation and Texture Features

Science.gov (United States)

Rezaeian, A.; Homayouni, S.; Safari, A.

2015-12-01

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.

PSInSAR technology and its use for monitoring of the Earth's surface deformation; Technologia PSInSAR a jej vyuzitie na monitorovanie deformacii zemskeho povrchu

Energy Technology Data Exchange (ETDEWEB)

Batorova, K [Univerzita Komenskeho v Bratislave, Prirodovedecka fakulta, Katedra inzinierskej geologie, 84215 Bratislava (Slovakia)

2012-04-25

Method of permanent reflex points (PSInSAR) allows to monitor the time evolution of deformations of the Earth's surface with a millimeter precision. For deformation size determination there are used the maps of movement speed or time delay of line set of data that are obtained by evaluating of SAR images. SAR files must be processed using the basic mathematical calculation presented in the work, with an emphasis on the parameters used in geology. Extensive processing of multiple SAR imagery showed that they can be used during monitoring of the field with an accurate identification of the objects on the Earth's surface, which provide a stable reflection of radar rays transmitted from the satellite. These objects are known as permanent reflection points (PS). PS can be geo-referenced, allowing accurate determination of the movement size of the Earth's surface deformation. In this paper an example of using of PSInSAR technology for monitoring of slope movements on the territory of Slovakia is presented. (authors)

Analysis of Spatiotemporal Characteristics of Pandemic SARS Spread in Mainland China

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Chunxiang Cao

2016-01-01

Full Text Available Severe acute respiratory syndrome (SARS is one of the most severe emerging infectious diseases of the 21st century so far. SARS caused a pandemic that spread throughout mainland China for 7 months, infecting 5318 persons in 194 administrative regions. Using detailed mainland China epidemiological data, we study spatiotemporal aspects of this person-to-person contagious disease and simulate its spatiotemporal transmission dynamics via the Bayesian Maximum Entropy (BME method. The BME reveals that SARS outbreaks show autocorrelation within certain spatial and temporal distances. We use BME to fit a theoretical covariance model that has a sine hole spatial component and exponential temporal component and obtain the weights of geographical and temporal autocorrelation factors. Using the covariance model, SARS dynamics were estimated and simulated under the most probable conditions. Our study suggests that SARS transmission varies in its epidemiological characteristics and SARS outbreak distributions exhibit palpable clusters on both spatial and temporal scales. In addition, the BME modelling demonstrates that SARS transmission features are affected by spatial heterogeneity, so we analyze potential causes. This may benefit epidemiological control of pandemic infectious diseases.

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

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

Science.gov (United States)

Carter, D.; Hall, C.

Spaceborne Earth Observation data has been used for decades in the areas of meteorology and optical imaging. The systems and satellites have, in the main, been owned and operated by a few government institutions and agencies. More recently industrial organizations in North America have joined the list. Few of these, however, include Synthetic Aperture Radar (SAR)., although the additional utility in terms of all weather, 24 hour measurement capability over the Earth's surface is well recognized. Three major factors explain this:1) Relationships between the SAR measurements of radar backscatter and images to the specific information needs have not been seen as sufficiently well understood or robust2) Availability of suitable sources, at the relevant performance and data quality have been inadequate to provide service assurance that is necessary to sustain commercial businesses3) Costs associated with building, launching and operating spaceborne SAR have not been low enough as to achieve an acceptable return of investment. A significant amount of research and development has been undertaken throughout the World to establish reliable and robust algorithms for information extraction from SAR data. Much of this work has been carried out utilizing airborne systems over localized and carefully controlled regions. In addition, an increasing number of pilot services have been offered by geo-information providers. This has allowed customer confidence to grow. With the status of spaceborne SAR being effectively in the development phase, commercial funding has been scarce, and there has been need to rely on government and institutional budgets. Today the increasing maturity of the technology of SAR and its applications is beginning to attract the commercial sector. This is the funding necessary to realize sufficient assets to be able to provide a robust supply of SAR data to the geo-information providers and subsequently a reliable service to customers. Reducing the costs

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.

ANALYSIS OF MULTIPATH PIXELS IN SAR IMAGES

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J. W. Zhao

2016-06-01

Full Text Available As the received radar signal is the sum of signal contributions overlaid in one single pixel regardless of the travel path, the multipath effect should be seriously tackled as the multiple bounce returns are added to direct scatter echoes which leads to ghost scatters. Most of the existing solution towards the multipath is to recover the signal propagation path. To facilitate the signal propagation simulation process, plenty of aspects such as sensor parameters, the geometry of the objects (shape, location, orientation, mutual position between adjacent buildings and the physical parameters of the surface (roughness, correlation length, permittivitywhich determine the strength of radar signal backscattered to the SAR sensor should be given in previous. However, it's not practical to obtain the highly detailed object model in unfamiliar area by field survey as it's a laborious work and time-consuming. In this paper, SAR imaging simulation based on RaySAR is conducted at first aiming at basic understanding of multipath effects and for further comparison. Besides of the pre-imaging simulation, the product of the after-imaging, which refers to radar images is also taken into consideration. Both Cosmo-SkyMed ascending and descending SAR images of Lupu Bridge in Shanghai are used for the experiment. As a result, the reflectivity map and signal distribution map of different bounce level are simulated and validated by 3D real model. The statistic indexes such as the phase stability, mean amplitude, amplitude dispersion, coherence and mean-sigma ratio in case of layover are analyzed with combination of the RaySAR output.

Early appearance of SARS on chest CT scan

International Nuclear Information System (INIS)

Cheng Xiaoguang; Feng Suchen; Xia Guoguang; Zhao Tao; Gu Xiang; Qu Hui

2003-01-01

Objective: To evaluate the early appearance of SARS on chest CT scan and its role in the early diagnosis. Methods: Forty cases of SARS in keeping with the criteria of the Ministry of Health had chest CT scans within 7 days of onset of symptoms, and CR chest X-ray films were available as well. These chest X-rays and CT images were retrospectively reviewed to determine if there were any abnormalities on the images. The lesions on the chest CT images were then further analyzed in terms of the number, location, size, and density. Results: Positive abnormalities on chest CT scans were revealed in all 40 SARS cases. Positive findings on CR chest films were showed in only 25 cases, equivocal in 6, and normal in 9 cases. The main abnormalities seen on CT and X-rays were pulmonary infiltrations varied markedly in severity. 70 % cases had 1 or 2 lesions on chest CT scan, 30 % cases had 3 or more lesions. The lesions seen on chest CT scan tended to be ground-glass opacification, sometimes with consolidation which was very faint and inhomogeneous, easily missed on chest X-rays. Typically the lesions were located in the periphery of the lung, or both central and peripheral lung, but very rare in a pure central location. They were commonly in the shape of patch or ball. Conclusions: Chest CT scan is much more sensitive in detecting the lesions of the lung in SARS. The early appearance of SARS on chest CT scan is characteristic but non-specific, indicating that chest CT scan plays a very important role in the early diagnosis and differential diagnosis of SARS

Slope Superficial Displacement Monitoring by Small Baseline SAR Interferometry Using Data from L-band ALOS PALSAR and X-band TerraSAR: A Case Study of Hong Kong, China

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Fulong Chen

2014-02-01

Full Text Available Owing to the development of spaceborne synthetic aperture radar (SAR platforms, and in particular the increase in the availability of multi-source (multi-band and multi-resolution data, it is now feasible to design a surface displacement monitoring application using multi-temporal SAR interferometry (MT-InSAR. Landslides have high socio-economic impacts in many countries because of potential geo-hazards and heavy casualties. In this study, taking into account the merits of ALOS PALSAR (L-band, good coherence preservation and TerraSAR (X-band, high resolution and short revisit times data, we applied an improved small baseline InSAR (SB-InSAR with 3-D phase unwrapping approach, to monitor slope superficial displacement in Hong Kong, China, a mountainous subtropical zone city influenced by over-urbanization and heavy monsoonal rains. Results revealed that the synergistic use of PALSAR and TerraSAR data produces different outcomes in relation to data reliability and spatial-temporal resolution, and hence could be of significant value for a comprehensive understanding and monitoring of unstable slopes.

Segment-based change detection for polarimetric SAR data

DEFF Research Database (Denmark)

Skriver, Henning; Nielsen, Allan Aasbjerg; Conradsen, Knut

2006-01-01

that is needed compared to single polarisation SAR to provide reliable and robust detection of changes. Polarimetric SAR data will be available from satellites in the near future, e.g. the Japanese ALOS, the Canadian Radarsat-2 and the German TerraSAR-X. An appropriate way of representing multi-look fully...... be split into a number of smaller fields, a building may be removed from or added to some area, hedgerows may be removed/added or other type of vegetated areas may be partly removed or added. In this case, ambiguities may arise when segments have changed shape and extent from one image to another...

Crop Classification Using Short-Revisit Multitemporal SAR Data

DEFF Research Database (Denmark)

Skriver, Henning; Mattia, Francesco; Satalino, Giuseppe

2011-01-01

Classification of crops and other land cover types is an important application of both optical/infrared and SAR satellite data. It is already an import application of present satellite systems, as it will be for planned missions, such as the Sentinels. An airborne SAR data set with a short revisi...

Localized landslide risk assessment with multi pass L band DInSAR analysis

Science.gov (United States)

Yun, HyeWon; Rack Kim, Jung; Lin, Shih-Yuan; Choi, YunSoo

2014-05-01

In terms of data availability and error correction, landslide forecasting by Differential Interferometric SAR (DInSAR) analysis is not easy task. Especially, the landslides by the anthropogenic construction activities frequently occurred in the localized cutting side of mountainous area. In such circumstances, it is difficult to attain sufficient enough accuracy because of the external factors inducing the error component in electromagnetic wave propagation. For instance, the local climate characteristics such as orographic effect and the proximity to water source can produce the significant anomalies in the water vapor distribution and consequently result in the error components of InSAR phase angle measurements. Moreover the high altitude parts of target area cause the stratified tropospheric delay error in DInSAR measurement. The other obstacle in DInSAR observation over the potential landside site is the vegetation canopy which causes the decorrelation of InSAR phase. Thus rather than C band sensor such as ENVISAT, ERS and RADARSAT, DInSAR analysis with L band ALOS PLASAR is more recommendable. Together with the introduction of L band DInSAR analysis, the improved DInSAR technique to cope all above obstacles is necessary. Thus we employed two approaches i.e. StaMPS/MTI (Stanford Method for Persistent Scatterers/Multi-Temporal InSAR, Hopper et al., 2007) which was newly developed for extracting the reliable deformation values through time series analysis and two pass DInSAR with the error term compensation based on the external weather information in this study. Since the water vapor observation from spaceborne radiometer is not feasible by the temporal gap in this case, the quantities from weather Research Forecasting (WRF) with 1 km spatial resolution was used to address the atmospheric phase error in two pass DInSAR analysis. Also it was observed that base DEM offset with time dependent perpendicular baselines of InSAR time series produce a significant error

Science data collection with polarimetric SAR

DEFF Research Database (Denmark)

Dall, Jørgen; Woelders, Kim; Madsen, Søren Nørvang

1996-01-01

Discusses examples on the use of polarimetric SAR in a number of Earth science studies. The studies are presently being conducted by the Danish Center for Remote Sensing. A few studies of the European Space Agency's EMAC programme are also discussed. The Earth science objectives are presented......, and the potential of polarimetric SAR is discussed and illustrated with data collected by the Danish airborne EMISAR system during a number of experiments in 1994 and 1995. The presentation will include samples of data acquired for the different studies...

Detecting and monitoring UCG subsidence with InSAR

Energy Technology Data Exchange (ETDEWEB)

Mellors, R J; Foxall, W; Yang, X

2012-03-23

The use of interferometric synthetic aperture radar (InSAR) to measure surface subsidence caused by Underground Coal Gasification (UCG) is tested. InSAR is a remote sensing technique that uses Synthetic Aperture Radar images to make spatial images of surface deformation and may be deployed from satellite or an airplane. With current commercial satellite data, the technique works best in areas with little vegetation or farming activity. UCG subsidence is generally caused by roof collapse, which adversely affects UCG operations due to gas loss and is therefore important to monitor. Previous studies have demonstrated the usefulness of InSAR in measuring surface subsidence related to coal mining and surface deformation caused by a coal mining roof collapse in Crandall Canyon, Utah is imaged as a proof-of-concept. InSAR data is collected and processed over three known UCG operations including two pilot plants (Majuba, South Africa and Wulanchabu, China) and an operational plant (Angren, Uzbekistan). A clear f eature showing approximately 7 cm of subsidence is observed in the UCG field in Angren. Subsidence is not observed in the other two areas, which produce from deeper coal seams and processed a smaller volume. The results show that in some cases, InSAR is a useful tool to image UCG related subsidence. Data from newer satellites and improved algorithms will improve effectiveness.

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...

Performance Analysis for Airborne Interferometric SAR Affected by Flexible Baseline Oscillation

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Liu Zhong-sheng

2014-04-01

Full Text Available The airborne interferometric SAR platform suffers from instability factors, such as air turbulence and mechanical vibrations during flight. Such factors cause the oscillation of the flexible baseline, which leads to significant degradation of the performance of the interferometric SAR system. This study is concerned with the baseline oscillation. First, the error of the slant range model under baseline oscillation conditions is formulated. Then, the SAR complex image signal and dual-channel correlation coefficient are modeled based on the first-order, second-order, and generic slant range error. Subsequently, the impact of the baseline oscillation on the imaging and interferometric performance of the SAR system is analyzed. Finally, simulations of the echo data are used to validate the theoretical analysis of the baseline oscillation in the airborne interferometric SAR.

Space Radar Image of West Texas - SAR scan

Science.gov (United States)

1999-01-01

This radar image of the Midland/Odessa region of West Texas, demonstrates an experimental technique, called ScanSAR, that allows scientists to rapidly image large areas of the Earth's surface. The large image covers an area 245 kilometers by 225 kilometers (152 miles by 139 miles). It was obtained by the Spaceborne Imaging Radar-C/X-Band Synthetic Aperture Radar (SIR-C/X-SAR) flying aboard the space shuttle Endeavour on October 5, 1994. The smaller inset image is a standard SIR-C image showing a portion of the same area, 100 kilometers by 57 kilometers (62 miles by 35 miles) and was taken during the first flight of SIR-C on April 14, 1994. The bright spots on the right side of the image are the cities of Odessa (left) and Midland (right), Texas. The Pecos River runs from the top center to the bottom center of the image. Along the left side of the image are, from top to bottom, parts of the Guadalupe, Davis and Santiago Mountains. North is toward the upper right. Unlike conventional radar imaging, in which a radar continuously illuminates a single ground swath as the space shuttle passes over the terrain, a Scansar radar illuminates several adjacent ground swaths almost simultaneously, by 'scanning' the radar beam across a large area in a rapid sequence. The adjacent swaths, typically about 50 km (31 miles) wide, are then merged during ground processing to produce a single large scene. Illumination for this L-band scene is from the top of the image. The beams were scanned from the top of the scene to the bottom, as the shuttle flew from left to right. This scene was acquired in about 30 seconds. A normal SIR-C image is acquired in about 13 seconds. The ScanSAR mode will likely be used on future radar sensors to construct regional and possibly global radar images and topographic maps. The ScanSAR processor is being designed for 1996 implementation at NASA's Alaska SAR Facility, located at the University of Alaska Fairbanks, and will produce digital images from the

Genomic Characterization of Two Novel SAR11 Isolates From the Red Sea, Including the First Strain of the SAR11 Ib clade

KAUST Repository

Jimenez Infante, Francy M.

2017-06-22

The SAR11 clade (Pelagibacterales) is a diverse group that forms a monophyletic clade within the Alphaproteobacteria, and constitutes up to one third of all prokaryotic cells in the photic zone of most oceans. Pelagibacterales are very abundant in the warm and highly saline surface waters of the Red Sea, raising the question of adaptive traits of SAR11 populations in this water body and warmer oceans through the world. In this study, two pure cultures were successfully obtained from surface waters on the Red Sea, one isolate of subgroup Ia and one of the previously uncultured SAR11 Ib lineage. The novel genomes were very similar to each other and to genomes of isolates of SAR11 subgroup Ia (Ia pan-genome), both in terms of gene content and synteny. Among the genes that were not present in the Ia pan-genome, 108 (RS39, Ia) and 151 genes (RS40, Ib) were strain-specific. Detailed analyses showed that only 51 (RS39, Ia) and 55 (RS40, Ib) of these strain-specific genes had not reported before on genome fragments of Pelagibacterales. Further analyses revealed the potential production of phosphonates by some SAR11 members and possible adaptations for oligotrophic life, including pentose sugar utilization and adhesion to marine particulate matter.

Genomic Characterization of Two Novel SAR11 Isolates From the Red Sea, Including the First Strain of the SAR11 Ib clade

KAUST Repository

Jimenez Infante, Francy M.; Ngugi, David; Vinu, Manikandan; Blom, Jochen; Alam, Intikhab; Bajic, Vladimir B.; Stingl, Ulrich

2017-01-01

The SAR11 clade (Pelagibacterales) is a diverse group that forms a monophyletic clade within the Alphaproteobacteria, and constitutes up to one third of all prokaryotic cells in the photic zone of most oceans. Pelagibacterales are very abundant in the warm and highly saline surface waters of the Red Sea, raising the question of adaptive traits of SAR11 populations in this water body and warmer oceans through the world. In this study, two pure cultures were successfully obtained from surface waters on the Red Sea, one isolate of subgroup Ia and one of the previously uncultured SAR11 Ib lineage. The novel genomes were very similar to each other and to genomes of isolates of SAR11 subgroup Ia (Ia pan-genome), both in terms of gene content and synteny. Among the genes that were not present in the Ia pan-genome, 108 (RS39, Ia) and 151 genes (RS40, Ib) were strain-specific. Detailed analyses showed that only 51 (RS39, Ia) and 55 (RS40, Ib) of these strain-specific genes had not reported before on genome fragments of Pelagibacterales. Further analyses revealed the potential production of phosphonates by some SAR11 members and possible adaptations for oligotrophic life, including pentose sugar utilization and adhesion to marine particulate matter.

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.

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.

Estimating soil moisture using the Danish polarimetric SAR

DEFF Research Database (Denmark)

Jiankang, Ji; Thomsen, A.; Skriver, Henning

1995-01-01

The results of applying data from the Danish polarimetric SAR (EMISAR) to estimate soil moisture for bare fields are presented. Fully calibrated C-band SAR images for hh, vv and cross polarizations have been used in this study. The measured surface roughness data showed that classical roughness a...... of surface parameters with the bilinear model, the correlation coefficient between the estimated and measured soil moisture, as well as rms height, is about 0.77. To improve the result, the local incidence angles need to be taken into account......The results of applying data from the Danish polarimetric SAR (EMISAR) to estimate soil moisture for bare fields are presented. Fully calibrated C-band SAR images for hh, vv and cross polarizations have been used in this study. The measured surface roughness data showed that classical roughness...... autocorrelation functions (Gaussian and Exponential) were not able to fit natural surfaces well. A Gauss-Exp hybrid model which agreed better with the measured data has been proposed. Theoretical surface scattering models (POM, IEM), as well as an empirical model for retrieval of soil moisture and surface rms...

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....

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.

SAR Ambiguity Study for the Cassini Radar

Science.gov (United States)

Hensley, Scott; Im, Eastwood; Johnson, William T. K.

1993-01-01

The Cassini Radar's synthetic aperture radar (SAR) ambiguity analysis is unique with respect to other spaceborne SAR ambiguity analyses owing to the non-orbiting spacecraft trajectory, asymmetric antenna pattern, and burst mode of data collection. By properly varying the pointing, burst mode timing, and radar parameters along the trajectory this study shows that the signal-to-ambiguity ratio of better than 15 dB can be achieved for all images obtained by the Cassini Radar.

Pulse-based internal calibration of polarimetric SAR

DEFF Research Database (Denmark)

Dall, Jørgen; Skou, Niels; Christensen, Erik Lintz

1994-01-01

Internal calibration greatly diminishes the dependence on calibration target deployment compared to external calibration. Therefore the Electromagnetics Institute (EMI) at the Technical University of Denmark (TUD) has equipped its polarimetric SAR, EMISAR, with several calibration loops and devel......Internal calibration greatly diminishes the dependence on calibration target deployment compared to external calibration. Therefore the Electromagnetics Institute (EMI) at the Technical University of Denmark (TUD) has equipped its polarimetric SAR, EMISAR, with several calibration loops...

Multi-look polarimetric SAR image filtering using simulated annealing

DEFF Research Database (Denmark)

Schou, Jesper

2000-01-01

Based on a previously published algorithm capable of estimating the radar cross-section in synthetic aperture radar (SAR) intensity images, a new filter is presented utilizing multi-look polarimetric SAR images. The underlying mean covariance matrix is estimated from the observed sample covariance...

The integration of Human Factors (HF) in the SAR process training course text

International Nuclear Information System (INIS)

Ryan, T.G.

1995-03-01

This text provides the technical basis for a two-day course on human factors (HF), as applied to the Safety Analysis Report (SAR) process. The overall objective of this text and course is to: provide the participant with a working knowledge of human factors-related requirements, suggestions for doing a human safety analysis applying a graded approach, and an ability to demonstrate using the results of the human safety analysis, that human factors elements as defined by DOE (human factors engineering, procedures, training, oversight, staffing, qualifications), can support wherever necessary, nuclear safety commitments in the SAR. More specifically, the objectives of the text and course are: (1) To provide the SAR preparer with general guidelines for doing HE within the context of a graded approach for the SAR; (2) To sensitize DOE facility managers and staff, safety analysts and SAR preparers, independent reviewers, and DOE reviewers and regulators, to DOE Order 5480.23 requirements for HE in the SAR; (3) To provide managers, analysts, reviewers and regulators with a working knowledge of HE concepts and techniques within the context of a graded approach for the SAR, and (4) To provide SAR managers and DOE reviewers and regulators with general guidelines for monitoring and coordinating the work of preparers of HE inputs throughout the SAR process, and for making decisions regarding the safety relevance of HE inputs to the SAR. As a ready reference for implementing the human factors requirements of DOE Order 5480.22 and DOE Standard 3009-94, this course text and accompanying two-day course are intended for all persons who are involved in the SAR

The integration of Human Factors (HF) in the SAR process training course text

Energy Technology Data Exchange (ETDEWEB)

Ryan, T.G.

1995-03-01

This text provides the technical basis for a two-day course on human factors (HF), as applied to the Safety Analysis Report (SAR) process. The overall objective of this text and course is to: provide the participant with a working knowledge of human factors-related requirements, suggestions for doing a human safety analysis applying a graded approach, and an ability to demonstrate using the results of the human safety analysis, that human factors elements as defined by DOE (human factors engineering, procedures, training, oversight, staffing, qualifications), can support wherever necessary, nuclear safety commitments in the SAR. More specifically, the objectives of the text and course are: (1) To provide the SAR preparer with general guidelines for doing HE within the context of a graded approach for the SAR; (2) To sensitize DOE facility managers and staff, safety analysts and SAR preparers, independent reviewers, and DOE reviewers and regulators, to DOE Order 5480.23 requirements for HE in the SAR; (3) To provide managers, analysts, reviewers and regulators with a working knowledge of HE concepts and techniques within the context of a graded approach for the SAR, and (4) To provide SAR managers and DOE reviewers and regulators with general guidelines for monitoring and coordinating the work of preparers of HE inputs throughout the SAR process, and for making decisions regarding the safety relevance of HE inputs to the SAR. As a ready reference for implementing the human factors requirements of DOE Order 5480.22 and DOE Standard 3009-94, this course text and accompanying two-day course are intended for all persons who are involved in the SAR.

Fusion method of SAR and optical images for urban object extraction

Science.gov (United States)

Jia, Yonghong; Blum, Rick S.; Li, Fangfang

2007-11-01

A new image fusion method of SAR, Panchromatic (Pan) and multispectral (MS) data is proposed. First of all, SAR texture is extracted by ratioing the despeckled SAR image to its low pass approximation, and is used to modulate high pass details extracted from the available Pan image by means of the á trous wavelet decomposition. Then, high pass details modulated with the texture is applied to obtain the fusion product by HPFM (High pass Filter-based Modulation) fusion method. A set of image data including co-registered Landsat TM, ENVISAT SAR and SPOT Pan is used for the experiment. The results demonstrate accurate spectral preservation on vegetated regions, bare soil, and also on textured areas (buildings and road network) where SAR texture information enhances the fusion product, and the proposed approach is effective for image interpret and classification.

SIMULATION OF SHIP GENERATED TURBULENT AND VORTICAL WAKE IMAGING BY SAR

Institute of Scientific and Technical Information of China (English)

Wang Aiming; Zhu Minhui

2004-01-01

Synthetic Aperture Radar (SAR) imaging of ocean surface features is studied. The simulation of the turbulent and vortical features generated by a moving ship and SAR imaging of these wakes is carried out. The turbulent wake damping the ocean surface capillary waves may be partially responsible for the suppression of surface waves near the ship track. The vortex pair generating a change in the lateral flow field behind the ship may be partially responsible for an enhancement of the waves near the edges of the smooth area. These hydrodynamic phenomena as well as the changes of radar backscatter generated by turbulence and vortex are simulated.An SAR imaging model is then used on such ocean surface features to provide SAR images.Comparison of two ships' simulated SAR images shows that the wake features are different for various ship parameters.

SAR Cross-Ambiguities in SAOCOM-CS Large Baseline Bistatic Configuration

OpenAIRE

Bordoni, Federica; Rodriguez-Cassola, Marc; Younis, Marwan; Prats-Iraola, Pau; Lopez-Dekker, Paco; Krieger, Gerhard

2016-01-01

The evaluation of the ambiguous signal level, the Ambiguity-to-Signal Ratio (ASR), plays a key role in the Synthetic Aperture Radar (SAR) design and performance prediction. In conventional SAR acquisition scenarios, the computation of the ASR is based on the evaluation of the range and azimuth ambiguous contributes. Though appealing for its simplicity, this approach could be inaccurate in case of complex SAR acquisition geometries. In this paper we focus on the ASR performance of the SAOCOM-...

Rice Crop Monitoring and Yield Estimation Through Cosmo Skymed and TerraSAR-X: A SAR-Based Experience in India

OpenAIRE

Pazhanivelan, S.; Kannan, P.; Christy Nirmala Mary, P.; Subramanian, E.; Jeyaraman, S.; Nelson, A.; Setiyono, T.; Holecz, F.; Barbieri, M.; Yadav, M.

2015-01-01

Rice is the most important cereal crop governing food security in Asia. Reliable and regular information on the area under rice production is the basis of policy decisions related to imports, exports and prices which directly affect food security. Recent and planned launches of SAR sensors coupled with automated processing can provide sustainable solutions to the challenges on mapping and monitoring rice systems. High resolution (3m) Synthetic Aperture Radar (SAR) imageries were used...

Identification of Alpha and Beta Coronavirus in Wildlife Species in France: Bats, Rodents, Rabbits, and Hedgehogs

Directory of Open Access Journals (Sweden)

Elodie Monchatre-Leroy

2017-11-01

Full Text Available Coronaviruses are closely monitored in the context of emerging diseases and, as illustrated with Severe Acute Respiratory Syndrome coronavirus (SARS-CoV and Middle East Respiratory Syndrome-coronavirus (MERS-CoV, are known to cross the species barrier and eventually to move from wildlife to humans. Knowledge of the diversity of coronaviruses in wildlife is therefore essential to better understand and prevent emergence events. This study explored the presence of coronaviruses in four wild mammal orders in France: Bats, rodents, lagomorphs, and hedgehogs. Betacoronavirus and Alphacoronavirus genera were identified. The results obtained suggest the circulation of potentially evolving virus strains, with the potential to cross the species barrier.

Canine coronaviruses: Epidemiology, evolution and pathobiology

NARCIS (Netherlands)

Decaro, N.

2009-01-01

Coronaviruses (CoVs; order Nidovirales, family Coronaviridae) are viruses exceptionally prone to genetic evolution through the continual accumulation of mutations and by homologous recombination between related members. CoVs are organised into three antigenic groups of which group 1 is subdivided in

G0-WISHART Distribution Based Classification from Polarimetric SAR Images

Science.gov (United States)

Hu, G. C.; Zhao, Q. H.

2017-09-01

Enormous scientific and technical developments have been carried out to further improve the remote sensing for decades, particularly Polarimetric Synthetic Aperture Radar(PolSAR) technique, so classification method based on PolSAR images has getted much more attention from scholars and related department around the world. The multilook polarmetric G0-Wishart model is a more flexible model which describe homogeneous, heterogeneous and extremely heterogeneous regions in the image. Moreover, the polarmetric G0-Wishart distribution dose not include the modified Bessel function of the second kind. It is a kind of simple statistical distribution model with less parameter. To prove its feasibility, a process of classification has been tested with the full-polarized Synthetic Aperture Radar (SAR) image by the method. First, apply multilook polarimetric SAR data process and speckle filter to reduce speckle influence for classification result. Initially classify the image into sixteen classes by H/A/α decomposition. Using the ICM algorithm to classify feature based on the G0-Wshart distance. Qualitative and quantitative results show that the proposed method can classify polaimetric SAR data effectively and efficiently.

The Generalized Gamma-DBN for High-Resolution SAR Image Classification

Directory of Open Access Journals (Sweden)

Zhiqiang Zhao

2018-06-01

Full Text Available With the increase of resolution, effective characterization of synthetic aperture radar (SAR image becomes one of the most critical problems in many earth observation applications. Inspired by deep learning and probability mixture models, a generalized Gamma deep belief network (g Γ-DBN is proposed for SAR image statistical modeling and land-cover classification in this work. Specifically, a generalized Gamma-Bernoulli restricted Boltzmann machine (gΓB-RBM is proposed to capture high-order statistical characterizes from SAR images after introducing the generalized Gamma distribution. After stacking the g Γ B-RBM and several standard binary RBMs in a hierarchical manner, a gΓ-DBN is constructed to learn high-level representation of different SAR land-covers. Finally, a discriminative neural network is constructed by adding an additional predict layer for different land-covers over the constructed deep structure. Performance of the proposed approach is evaluated via several experiments on some high-resolution SAR image patch sets and two large-scale scenes which are captured by ALOS PALSAR-2 and COSMO-SkyMed satellites respectively.

a Statistical Texture Feature for Building Collapse Information Extraction of SAR Image

Science.gov (United States)

Li, L.; Yang, H.; Chen, Q.; Liu, X.

2018-04-01

Synthetic Aperture Radar (SAR) has become one of the most important ways to extract post-disaster collapsed building information, due to its extreme versatility and almost all-weather, day-and-night working capability, etc. In view of the fact that the inherent statistical distribution of speckle in SAR images is not used to extract collapsed building information, this paper proposed a novel texture feature of statistical models of SAR images to extract the collapsed buildings. In the proposed feature, the texture parameter of G0 distribution from SAR images is used to reflect the uniformity of the target to extract the collapsed building. This feature not only considers the statistical distribution of SAR images, providing more accurate description of the object texture, but also is applied to extract collapsed building information of single-, dual- or full-polarization SAR data. The RADARSAT-2 data of Yushu earthquake which acquired on April 21, 2010 is used to present and analyze the performance of the proposed method. In addition, the applicability of this feature to SAR data with different polarizations is also analysed, which provides decision support for the data selection of collapsed building information extraction.

Multi-Pixel Simultaneous Classification of PolSAR Image Using Convolutional Neural Networks

Science.gov (United States)

Xu, Xin; Gui, Rong; Pu, Fangling

2018-01-01

Convolutional neural networks (CNN) have achieved great success in the optical image processing field. Because of the excellent performance of CNN, more and more methods based on CNN are applied to polarimetric synthetic aperture radar (PolSAR) image classification. Most CNN-based PolSAR image classification methods can only classify one pixel each time. Because all the pixels of a PolSAR image are classified independently, the inherent interrelation of different land covers is ignored. We use a fixed-feature-size CNN (FFS-CNN) to classify all pixels in a patch simultaneously. The proposed method has several advantages. First, FFS-CNN can classify all the pixels in a small patch simultaneously. When classifying a whole PolSAR image, it is faster than common CNNs. Second, FFS-CNN is trained to learn the interrelation of different land covers in a patch, so it can use the interrelation of land covers to improve the classification results. The experiments of FFS-CNN are evaluated on a Chinese Gaofen-3 PolSAR image and other two real PolSAR images. Experiment results show that FFS-CNN is comparable with the state-of-the-art PolSAR image classification methods. PMID:29510499

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

Directory of Open Access Journals (Sweden)

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.

Achieving a golden mean: mechanisms by which coronaviruses ensure synthesis of the correct stoichiometric ratios of viral proteins.

Science.gov (United States)

Plant, Ewan P; Rakauskaite, Rasa; Taylor, Deborah R; Dinman, Jonathan D

2010-05-01

In retroviruses and the double-stranded RNA totiviruses, the efficiency of programmed -1 ribosomal frameshifting is critical for ensuring the proper ratios of upstream-encoded capsid proteins to downstream-encoded replicase enzymes. The genomic organizations of many other frameshifting viruses, including the coronaviruses, are very different, in that their upstream open reading frames encode nonstructural proteins, the frameshift-dependent downstream open reading frames encode enzymes involved in transcription and replication, and their structural proteins are encoded by subgenomic mRNAs. The biological significance of frameshifting efficiency and how the relative ratios of proteins encoded by the upstream and downstream open reading frames affect virus propagation has not been explored before. Here, three different strategies were employed to test the hypothesis that the -1 PRF signals of coronaviruses have evolved to produce the correct ratios of upstream- to downstream-encoded proteins. Specifically, infectious clones of the severe acute respiratory syndrome (SARS)-associated coronavirus harboring mutations that lower frameshift efficiency decreased infectivity by >4 orders of magnitude. Second, a series of frameshift-promoting mRNA pseudoknot mutants was employed to demonstrate that the frameshift signals of the SARS-associated coronavirus and mouse hepatitis virus have evolved to promote optimal frameshift efficiencies. Finally, we show that a previously described frameshift attenuator element does not actually affect frameshifting per se but rather serves to limit the fraction of ribosomes available for frameshifting. The findings of these analyses all support a "golden mean" model in which viruses use both programmed ribosomal frameshifting and translational attenuation to control the relative ratios of their encoded proteins.

Evaluation of Polarimetric SAR Decomposition for Classifying Wetland Vegetation Types

Directory of Open Access Journals (Sweden)

Sang-Hoon Hong

2015-07-01

Full Text Available The Florida Everglades is the largest subtropical wetland system in the United States and, as with subtropical and tropical wetlands elsewhere, has been threatened by severe environmental stresses. It is very important to monitor such wetlands to inform management on the status of these fragile ecosystems. This study aims to examine the applicability of TerraSAR-X quadruple polarimetric (quad-pol synthetic aperture radar (PolSAR data for classifying wetland vegetation in the Everglades. We processed quad-pol data using the Hong & Wdowinski four-component decomposition, which accounts for double bounce scattering in the cross-polarization signal. The calculated decomposition images consist of four scattering mechanisms (single, co- and cross-pol double, and volume scattering. We applied an object-oriented image analysis approach to classify vegetation types with the decomposition results. We also used a high-resolution multispectral optical RapidEye image to compare statistics and classification results with Synthetic Aperture Radar (SAR observations. The calculated classification accuracy was higher than 85%, suggesting that the TerraSAR-X quad-pol SAR signal had a high potential for distinguishing different vegetation types. Scattering components from SAR acquisition were particularly advantageous for classifying mangroves along tidal channels. We conclude that the typical scattering behaviors from model-based decomposition are useful for discriminating among different wetland vegetation types.

SAR11 Bacteria: The Most Abundant Plankton in the Oceans.

Science.gov (United States)

Giovannoni, Stephen J

2017-01-03

SAR11 is a group of small, carbon-oxidizing bacteria that reach a global estimated population size of 2.4×10 28 cells-approximately 25% of all plankton. They are found throughout the oceans but reach their largest numbers in stratified, oligotrophic gyres, which are an expanding habitat in the warming oceans. SAR11 likely had a Precambrian origin and, over geological time, evolved into the niche of harvesting labile, low-molecular-weight dissolved organic matter (DOM). SAR11 cells are minimal in size and complexity, a phenomenon known as streamlining that is thought to benefit them by lowering the material costs of replication and maximizing transport functions that are essential to competition at ultralow nutrient concentrations. One of the surprises in SAR11 metabolism is their ability to both oxidize and produce a variety of volatile organic compounds that can diffuse into the atmosphere. SAR11 cells divide slowly and lack many forms of regulation commonly used by bacterial cells to adjust to changing environmental conditions. As a result of genome reduction, they require an unusual range of nutrients, which leads to complex biochemical interactions with other plankton. The study of SAR11 is providing insight into the biogeochemistry of labile DOM and is affecting microbiology beyond marine science by providing a model for understanding the evolution and function of streamlined cells.

Specific Inhibition of the VEGFR-3 Tyrosine Kinase by SAR131675 Reduces Peripheral and Tumor Associated Immunosuppressive Myeloid Cells

International Nuclear Information System (INIS)

Espagnolle, Nicolas; Barron, Pauline; Mandron, Marie; Blanc, Isabelle; Bonnin, Jacques; Agnel, Magali; Kerbelec, Erwan; Herault, Jean Pascal; Savi, Pierre; Bono, Françoise; Alam, Antoine

2014-01-01

Myeloid derived suppressor cells (MDSCs) and tumor-associated macrophages (TAMs) represent prominent components in cancer progression. We previously showed that inhibition of the VEGFR-3 pathway by SAR131675 leads to reduction of TAM infiltration and tumor growth. Here, we found that treatment with SAR131675 prevents the accumulation of immunosuppressive blood and splenic MDSCs which express VEGFR-3, in 4T1 tumor bearing mice. Moreover we showed that soluble factors secreted by tumor cells promote MDSCs proliferation and differentiation into M2 polarized F4/80+ macrophages. In addition, cell sorting and transcriptomic analysis of tumor infiltrating myeloid cells revealed the presence of a heterogeneous population that could be divided into 3 subpopulations: (i) immature cells with a MDSC phenotype (GR1+/CD11b+/F4/80 − ); (ii) “immuno-incompetent” macrophages (F4/80 high /CD86 neg /MHCII Low ) strongly expressing M2 markers such as Legumain, CD206 and Mgl1/2 and (iii) “immuno-competent”-M1 like macrophages (F4/80 Low /CD86 + /MHCII High ). SAR131675 treatment reduced MDSCs in lymphoid organs as well as F4/80 High populations in tumors. Interestingly, in the tumor SAR131675 was able to increase the immunocompetent M1 like population (F4/80 low ). Altogether these results demonstrate that the specific VEGFR-3 inhibitor SAR131675 exerts its anti tumoral activity by acting on different players that orchestrate immunosuppression and cancer progression in a tumoral context: MDSCs in peripheral lymphoid organs and TAMs infiltrating the tumor

Multi-temporal and Dual-polarization Interferometric SAR for Land Cover Type Classification

Directory of Open Access Journals (Sweden)

WANG Xinshuang

2015-05-01

Full Text Available In order to study SAR land cover classification method, this paper uses the multi-dimensional combination of temporal,polarization and InSAR data. The area covered by space borne data of ALOS PALSAR in Xunke County,Heilongjiang Province was chosen as test site. A land cover classification technique of SVM based on multi-temporal, multi-polarization and InSAR data had been proposed, using the sensitivity to land cover type of multi-temporal, multi-polarization SAR data and InSAR measurements, and combing time series characteristic of backscatter coefficient and correlation coefficient to identify ground objects. The results showed the problem of confusion between forest land and urban construction land can be nicely solved, using the correlation coefficient between HH and HV, and also combing the selected temporal, polarization and InSAR characteristics. The land cover classification result with higher accuracy is gotten using the classification algorithm proposed in this paper.

New free Danish online (Q)SAR predictions database with >600,000 substances

DEFF Research Database (Denmark)

Wedebye, Eva Bay; Dybdahl, Marianne; Reffstrup, Trine Klein

Since 2005 the Danish (Q)SAR Database has been freely available on the Internet. It is a tool that allows single chemical substance profiling and screenings based on predicted hazard information. The database is also included in the OECD (Q)SAR Application Toolbox which is used worldwide...... by regulators and industry. A lot of progress in (Q)SAR model development, application and documentation has been made since the publication in 2005. A new and completely rebuild online (Q)SAR predictions database was therefore published in November 2015 at http://qsar.food.dtu.dk. The number of chemicals...... in the database has been expanded from 185,000 to >600,000. As far as possible all organic single constituent substances that were pre-registered under REACH have been included in the new structure set. The new Danish (Q)SAR Database includes estimates from more than 200 (Q)SARs covering a wide range of hazardous...

There is no one-size-fits-all product for InSAR; on the inclusion of contextual information for geodetically-proof InSAR data products

Science.gov (United States)

Hanssen, R. F.

2017-12-01

In traditional geodesy, one is interested in determining the coordinates, or the change in coordinates, of predefined benchmarks. These benchmarks are clearly identifiable and are especially established to be representative of the signal of interest. This holds, e.g., for leveling benchmarks, for triangulation/trilateration benchmarks, and for GNSS benchmarks. The desired coordinates are not identical to the basic measurements, and need to be estimated using robust estimation procedures, where the stochastic nature of the measurements is taken into account. For InSAR, however, the `benchmarks' are not predefined. In fact, usually we do not know where an effective benchmark is located, even though we can determine its dynamic behavior pretty well. This poses several significant problems. First, we cannot describe the quality of the measurements, unless we already know the dynamic behavior of the benchmark. Second, if we don't know the quality of the measurements, we cannot compute the quality of the estimated parameters. Third, rather harsh assumptions need to be made to produce a result. These (usually implicit) assumptions differ between processing operators and the used software, and are severely affected by the amount of available data. Fourth, the `relative' nature of the final estimates is usually not explicitly stated, which is particularly problematic for non-expert users. Finally, whereas conventional geodesy applies rigorous testing to check for measurement or model errors, this is hardly ever done in InSAR-geodesy. These problems make it rather impossible to provide a precise, reliable, repeatable, and `universal' InSAR product or service. Here we evaluate the requirements and challenges to move towards InSAR as a geodetically-proof product. In particular this involves the explicit inclusion of contextual information, as well as InSAR procedures, standards and a technical protocol, supported by the International Association of Geodesy and the

What is missing? An operational inundation mapping framework by SAR data

Science.gov (United States)

Shen, X.; Anagnostou, E. N.; Zeng, Z.; Kettner, A.; Hong, Y.

2017-12-01

Compared to optical sensors, synthetic aperture radar (SAR) works all-day all-weather. In addition, its spatial resolution does not decrease with the height of the platform and is thus applicable to a range of important studies. However, existing studies did not address the operational demands of real-time inundation mapping. The direct proof is that no water body product exists for any SAR-based satellites. Then what is missing between science and products? Automation and quality. What makes it so difficult to develop an operational inundation mapping technique based on SAR data? Spectrum-wise, unlike optical water indices such as MNDWI, AWEI etc., where a relative constant threshold may apply across acquisition of images, regions and sensors, the threshold to separate water from non-water pixels in each SAR images has to be individually chosen. The optimization of the threshold is the first obstacle to the automation of the SAR data algorithm. Morphologically, the quality and reliability of the results have been compromised by over-detection caused by smooth surface and shadowing area, the noise-like speckle and under-detection caused by strong-scatter disturbance. In this study, we propose a three-step framework that addresses all aforementioned issues of operational inundation mapping by SAR data. The framework consists of 1) optimization of Wishart distribution parameters of single/dual/fully-polarized SAR data, 2) morphological removal of over-detection, and 3) machine-learning based removal of under-detection. The framework utilizes not only the SAR data, but also the synergy of digital elevation model (DEM), and optical sensor-based products of fine resolution, including the water probability map, land cover classification map (optional), and river width. The framework has been validated throughout multiple areas in different parts of the world using different satellite SAR data and globally available ancillary data products. Therefore, it has the potential

Comparing satellite SAR and wind farm wake models

DEFF Research Database (Denmark)

Hasager, Charlotte Bay; Vincent, P.; Husson, R.

2015-01-01

. These extend several tens of kilometres downwind e.g. 70 km. Other SAR wind maps show near-field fine scale details of wake behind rows of turbines. The satellite SAR wind farm wake cases are modelled by different wind farm wake models including the PARK microscale model, the Weather Research and Forecasting...... (WRF) model in high resolution and WRF with coupled microscale parametrization....

Genomic characterization of two novel SAR11 isolates from the Red Sea, including the first strain of the SAR11 Ib clade.

Science.gov (United States)

Jimenez-Infante, Francy; Ngugi, David Kamanda; Vinu, Manikandan; Blom, Jochen; Alam, Intikhab; Bajic, Vladimir B; Stingl, Ulrich

2017-07-01

The SAR11 clade (Pelagibacterales) is a diverse group that forms a monophyletic clade within the Alphaproteobacteria, and constitutes up to one third of all prokaryotic cells in the photic zone of most oceans. Pelagibacterales are very abundant in the warm and highly saline surface waters of the Red Sea, raising the question of adaptive traits of SAR11 populations in this water body and warmer oceans through the world. In this study, two pure cultures were successfully obtained from surface waters on the Red Sea: one isolate of subgroup Ia and one of the previously uncultured SAR11 Ib lineage. The novel genomes were very similar to each other and to genomes of isolates of SAR11 subgroup Ia (Ia pan-genome), both in terms of gene content and synteny. Among the genes that were not present in the Ia pan-genome, 108 (RS39, Ia) and 151 genes (RS40, Ib) were strain specific. Detailed analyses showed that only 51 (RS39, Ia) and 55 (RS40, Ib) of these strain-specific genes had not reported before on genome fragments of Pelagibacterales. Further analyses revealed the potential production of phosphonates by some SAR11 members and possible adaptations for oligotrophic life, including pentose sugar utilization and adhesion to marine particulate matter. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

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.

TOWARDS CHANGE DETECTION IN URBAN AREA BY SAR INTERFEROMETRY AND RADARGRAMMETRY

Directory of Open Access Journals (Sweden)

C. Dubois

2013-04-01

Full Text Available Change detection in urban area is an active topic in remote sensing. However, well-dealt subject in optical remote sensing, this research topic is still at an early stage and needs deeper investigations and improvement in what concerns SAR and InSAR remote sensing. Due to their weather and daylight-independency, SAR sensors allow an all-time observation of the earth. This is determining in cases where rapid change detection is required after a natural – or technological – disaster. Due to the high resolution that can be achieved, the new generation of space-borne radar sensors opens up new perspectives for analysing buildings in urban areas. Moreover, due to their short revisiting cycle, they give rise to monitoring and change detection applications. In this paper, we present a concept for change detection in urban area at building level, relying only on SAR- and InSAR data. In this approach, interferometric and radargrammetric SAR data are merged in order to detect changes. Here, we present the overall workflow, the test area, the required data as well as first findings on the best-suited stereo-configurations for change detection.

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

SAR China Land Mapping Project: Development, Production and Potential Applications

International Nuclear Information System (INIS)

Zhang, Lu; Guo, Huadong; Liu, Guang; Fu, Wenxue; Yan, Shiyong; Song, Rui; Ji, Peng; Wang, Xinyuan

2014-01-01

Large-area, seamless synthetic aperture radar (SAR) mosaics can reflect overall environmental conditions and highlight general trends in observed areas from a macroscopic standpoint, and effectively support research at the global scale, which is in high demand now across scientific fields. The SAR China Land Mapping Project (SCLM), supported by the Digital Earth Science Platform Project initiated and managed by the Center for Earth Observation and Digital Earth, Chinese Academy of Sciences (CEODE), is introduced in this paper. This project produced a large-area SAR mosaic dataset and generated the first complete seamless SAR map covering the entire land area of China using EnviSat-ASAR images. The value of the mosaic map is demonstrated by some potential applications in studies of urban distribution, rivers and lakes, geologic structures, geomorphology and paleoenvironmental change

Vegetation Parameter Extraction Using Dual Baseline Polarimetric SAR Interferometry Data

Science.gov (United States)

Zhang, H.; Wang, C.; Chen, X.; Tang, Y.

2009-04-01

For vegetation parameter inversion, the single baseline polarimetric SAR interferometry (POLinSAR) technique, such as the three-stage method and the ESPRIT algorithm, is limited by the observed data with the minimum ground to volume amplitude ration, which effects the estimation of the effective phase center for the vegetation canopy or the surface, and thus results in the underestimated vegetation height. In order to remove this effect of the single baseline inversion techniques in some extend, another baseline POLinSAR data is added on vegetation parameter estimation in this paper, and a dual baseline POLinSAR technique for the extraction of the vegetation parameter is investigated and improved to reduce the dynamic bias for the vegetation parameter estimation. Finally, the simulated data and real data are used to validate this dual baseline technique.

Exploring cloud and big data components for SAR archiving and analysis

Science.gov (United States)

Baker, S.; Crosby, C. J.; Meertens, C.; Phillips, D.

2017-12-01

Under the Geodesy Advancing Geoscience and EarthScope (GAGE) NSF Cooperative Agreement, UNAVCO has seen the volume of the SAR Data Archive grow at a substantial rate, from 2 TB in Y1 and 5 TB in Y2 to 41 TB in Y3 primarily due to WInSAR PI proposal management of ALOS-­2/JAXA (Japan Aerospace Exploration Agency) data and to a lesser extent Supersites and other data collections. JAXA provides a fixed number of scenes per year for each PI, and some data files are 50­-60GB each, which accounts for the large volume of data. In total, over 100TB of SAR data are in the WInSAR/UNAVCO archive and a large portion of these are available unrestricted for WInSAR members. In addition to the existing data, newer data streams from the Sentinel-1 and NISAR missions will require efficient processing pipelines and easily scalable infrastructure to handle processed results. With these growing data sizes and space concerns, the SAR archive operations migrated to the Texas Advanced Computing Center (TACC) via an NSF XSEDE proposal in spring 2017. Data are stored on an HPC system while data operations are running on Jetstream virtual machines within the same datacenter. In addition to the production data operations, testing was done in early 2017 with container based InSAR processing analysis using JupyterHub and Docker images deployed on a VM cluster on Jetstream. The JupyterHub environment is well suited for short courses and other training opportunities for the community such as labs for university courses on InSAR. UNAVCO is also exploring new processing methodologies using DC/OS (the datacenter operating system) for batch and stream processing workflows and time series analysis with Big Data open source components like the Spark, Mesos, Akka, Cassandra, Kafka (SMACK) stack. The comparison of the different methodologies will provide insight into the pros and cons for each and help the SAR community with decisions about infrastructure and software requirements to meet their research

Calibration of SAR probes in waveguide at 900 MHz

International Nuclear Information System (INIS)

Jokela, K.; Puranen, L.; Hyysalo, P.

1998-01-01

The radiation safety tests for hand-held mobile phones require precise calibration of the small electric field probes used for the measurement of SAR in phantoms simulating the human body. In this study a calibration based on a rectangular waveguide was developed for SAR calibrations at 900 MHz

Project PHARUS: Towards a polarimetric C-band airborne SAR

NARCIS (Netherlands)

Hoogeboom, P.; Koomen, P.J.; Otten, M.P.G.; Pouwels, H.; Snoeij, P.

1989-01-01

A few years ago three institutes in the Netherlands developed a plan to design and build a polarimetric C-band aircraft SAR system of a novel design, called PHARUS (PHased Array Universal SAR), meant as a replacement for our current digital SLAR system. These institutes are the Physics and

Change Detection with Polarimetric SAR Imagery for Nuclear Verification

International Nuclear Information System (INIS)

Canty, M.

2015-01-01

This paper investigates the application of multivariate statistical change detection with high-resolution polarimetric SAR imagery acquired from commercial satellite platforms for observation and verification of nuclear activities. A prototype software tool comprising a processing chain starting from single look complex (SLC) multitemporal data through to change detection maps is presented. Multivariate change detection algorithms applied to polarimetric SAR data are not common. This is because, up until recently, not many researchers or practitioners have had access to polarimetric data. However with the advent of several spaceborne polarimetric SAR instruments such as the Japanese ALOS, the Canadian Radarsat-2, the German TerraSAR-X, the Italian COSMO-SkyMed missions and the European Sentinal SAR platform, the situation has greatly improved. There is now a rich source of weather-independent satellite radar data which can be exploited for Nuclear Safeguards purposes. The method will also work for univariate data, that is, it is also applicable to scalar or single polarimetric SAR data. The change detection procedure investigated here exploits the complex Wishart distribution of dual and quad polarimetric imagery in look-averaged covariance matrix format in order to define a per-pixel change/no-change hypothesis test. It includes approximations for the probability distribution of the test statistic, and so permits quantitative significance levels to be quoted for change pixels. The method has been demonstrated previously with polarimetric images from the airborne EMISAR sensor, but is applied here for the first time to satellite platforms. In addition, an improved multivariate method is used to estimate the so-called equivalent number of looks (ENL), which is a critical parameter of the hypothesis test. (author)

From genome to antivirals: SARS as a test tube.

Science.gov (United States)

Kliger, Yossef; Levanon, Erez Y; Gerber, Doron

2005-03-01

The severe acute respiratory syndrome (SARS) epidemic brought into the spotlight the need for rapid development of effective anti-viral drugs against newly emerging viruses. Researchers have leveraged the 20-year battle against AIDS into a variety of possible treatments for SARS. Most prominently, based solely on viral genome information, silencers of viral genes, viral-enzyme blockers and viral-entry inhibitors were suggested as potential therapeutic agents for SARS. In particular, inhibitors of viral entry, comprising therapeutic peptides, were based on the recently launched anti-HIV drug enfuvirtide. This could represent one of the most direct routes from genome sequencing to the discovery of antiviral drugs.

Target discrimination method for SAR images based on semisupervised co-training

Science.gov (United States)

Wang, Yan; Du, Lan; Dai, Hui

2018-01-01

Synthetic aperture radar (SAR) target discrimination is usually performed in a supervised manner. However, supervised methods for SAR target discrimination may need lots of labeled training samples, whose acquirement is costly, time consuming, and sometimes impossible. This paper proposes an SAR target discrimination method based on semisupervised co-training, which utilizes a limited number of labeled samples and an abundant number of unlabeled samples. First, Lincoln features, widely used in SAR target discrimination, are extracted from the training samples and partitioned into two sets according to their physical meanings. Second, two support vector machine classifiers are iteratively co-trained with the extracted two feature sets based on the co-training algorithm. Finally, the trained classifiers are exploited to classify the test data. The experimental results on real SAR images data not only validate the effectiveness of the proposed method compared with the traditional supervised methods, but also demonstrate the superiority of co-training over self-training, which only uses one feature set.

Investigation of the Capability of Compact Polarimetric SAR Interferometry to Estimate Forest Height

Science.gov (United States)

Zhang, Hong; Xie, Lei; Wang, Chao; Chen, Jiehong

2013-08-01

The main objective of this paper is to investigate the capability of compact Polarimetric SAR Interferometry (C-PolInSAR) on forest height estimation. For this, the pseudo fully polarimetric interferomteric (F-PolInSAR) covariance matrix is firstly reconstructed, then the three- stage inversion algorithm, hybrid algorithm, Music and Capon algorithm are applied to both C-PolInSAR covariance matrix and pseudo F-PolInSAR covariance matrix. The availability of forest height estimation is demonstrated using L-band data generated by simulator PolSARProSim and X-band airborne data acquired by East China Research Institute of Electronic Engineering, China Electronics Technology Group Corporation.

Information theoretic bounds for compressed sensing in SAR imaging

International Nuclear Information System (INIS)

Jingxiong, Zhang; Ke, Yang; Jianzhong, Guo

2014-01-01

Compressed sensing (CS) is a new framework for sampling and reconstructing sparse signals from measurements significantly fewer than those prescribed by Nyquist rate in the Shannon sampling theorem. This new strategy, applied in various application areas including synthetic aperture radar (SAR), relies on two principles: sparsity, which is related to the signals of interest, and incoherence, which refers to the sensing modality. An important question in CS-based SAR system design concerns sampling rate necessary and sufficient for exact or approximate recovery of sparse signals. In the literature, bounds of measurements (or sampling rate) in CS have been proposed from the perspective of information theory. However, these information-theoretic bounds need to be reviewed and, if necessary, validated for CS-based SAR imaging, as there are various assumptions made in the derivations of lower and upper bounds on sub-Nyquist sampling rates, which may not hold true in CS-based SAR imaging. In this paper, information-theoretic bounds of sampling rate will be analyzed. For this, the SAR measurement system is modeled as an information channel, with channel capacity and rate-distortion characteristics evaluated to enable the determination of sampling rates required for recovery of sparse scenes. Experiments based on simulated data will be undertaken to test the theoretic bounds against empirical results about sampling rates required to achieve certain detection error probabilities

Pixel Classification of SAR ice images using ANFIS-PSO Classifier

Directory of Open Access Journals (Sweden)

G. Vasumathi

2016-12-01

Full Text Available Synthetic Aperture Radar (SAR is playing a vital role in taking extremely high resolution radar images. It is greatly used to monitor the ice covered ocean regions. Sea monitoring is important for various purposes which includes global climate systems and ship navigation. Classification on the ice infested area gives important features which will be further useful for various monitoring process around the ice regions. Main objective of this paper is to classify the SAR ice image that helps in identifying the regions around the ice infested areas. In this paper three stages are considered in classification of SAR ice images. It starts with preprocessing in which the speckled SAR ice images are denoised using various speckle removal filters; comparison is made on all these filters to find the best filter in speckle removal. Second stage includes segmentation in which different regions are segmented using K-means and watershed segmentation algorithms; comparison is made between these two algorithms to find the best in segmenting SAR ice images. The last stage includes pixel based classification which identifies and classifies the segmented regions using various supervised learning classifiers. The algorithms includes Back propagation neural networks (BPN, Fuzzy Classifier, Adaptive Neuro Fuzzy Inference Classifier (ANFIS classifier and proposed ANFIS with Particle Swarm Optimization (PSO classifier; comparison is made on all these classifiers to propose which classifier is best suitable for classifying the SAR ice image. Various evaluation metrics are performed separately at all these three stages.

A study on SARS awareness and health-seeking behaviour - findings from a sampled population attending National Healthcare Group Polyclinics.

Science.gov (United States)

Seng, S L; Lim, P S; Ng, M Y; Wong, H B; Emmanuel, S C

2004-09-01

The study aimed to assess the effectiveness of massive SARS public education effort on SARS awareness and the conduct of those suspected of having SARS. Five hundred and ninety-three respondents attending the National Healthcare Group Polyclinics (NHGP) participated in the survey from 9 to 13 June 2003. Associations between awareness of SARS symptoms and (i) first action to be taken and (ii) mode of transportation used, if the respondent was suspected of having SARS, were analysed using Chi-square or Fisher's exact tests. Logistic regression was performed to adjust for relevant covariates. The majority (92.7%) of the respondents were aware of SARS symptoms. Television (91.6%), newspaper (65.2%) and radio (30.4%) formed the top 3 sources of information on SARS. Slightly more than half (51.6%) of those who suspect themselves of having SARS would choose to visit their primary health care doctors, while 22.7% of the respondents would go to Tan Tock Seng Hospital (TTSH). If they suspected themselves to have SARS, most (84.9%) of the 578 respondents would react appropriately by taking the SARS ambulance or driving themselves to TTSH. However, 60 respondents would nonetheless take public transport to TTSH [by taxi 8.5%, mass rapid transit (MRT) or bus 1.9%]. In particular, the retired with lower educational levels were likely to be oblivious both to the symptoms of SARS and the possible consequences of travelling by inappropriate transport. Despite more than 2 months of intensive SARS public education in Singapore, there remain important gaps in knowledge and appropriate behaviour that have to be bridged.

Research on Strong Clutter Suppression for Gaofen-3 Dual-Channel SAR/GMTI

Directory of Open Access Journals (Sweden)

Mingjie Zheng

2018-03-01

Full Text Available In spaceborne synthetic aperture radar (SAR, moving targets are almost buried in ground clutter due to the wide clutter Doppler spectrum and the restricted pulse repetition frequency (PRF, which increases the difficulty of moving target detection. Clutter suppression is one of the key issues in the spaceborne SAR moving target indicator operation. In this paper, we describe the clutter suppression principle and analyze the influence of amplitude and phase error on clutter suppression. In the following, a novel dual-channel SAR clutter suppression algorithm is proposed, which is suitable for the Gaofen-3(GF-3 SAR sensor. The proposed algorithm consists of three technique steps, namely adaptive two-dimensional (2D channel calibration, refined amplitude error correction and refined phase error correction. After channel error is corrected by these procedures, the clutter component, especially a strong clutter component, can be well suppressed. The validity of the proposed algorithm is verified by GF-3 SAR real data which demonstrates the ground moving-target indication (GMTI capability of GF-3 SAR sensor.

Latitudinal dynamics of SAR-arcs relative to the local time

International Nuclear Information System (INIS)

Alekseev, V.N.; Ievenko, I.B.

1991-01-01

In November-December, 1988, January-April, 1989-1990, at the Maymaga station in Yakutia according to spectrophotometric data 47 events of the occurrence of red stable middle-latitudinal arcs (SAR-arcs) were recorded. On the basis of these data the latitudinal dynamics of SAR-arcs was studied depending on the local time and geomagnetic disturbance level. The uniform equatorial shift of SAR arcs in the night time is noticed, and a sharp increase of the speed of this motion can be caused by the nonstationary character of the magnetospheric activity

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.

Wind mapping offshore in coastal Mediterranean area using SAR images

DEFF Research Database (Denmark)

Calaudi, Rosamaria; Arena, Felice; Badger, Merete

Satellite observations of the ocean surface from Synthetic Aperture Radars (SAR) provide information about the spatial wind variability over large areas. This is of special interest in the Mediterranean, where spatial wind information is only provided by sparse buoys, often with long periods...... of missing data. Here, we focus on evaluating the use of SAR for offshore wind mapping. Preliminary results from the analysis of SAR-based ocean winds in Mediterranean areas show interesting large scale wind flow features consistent with results from previous studies using numerical models and space borne...

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...

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 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.

Satellite sar detection of hurricane helene (2006)

DEFF Research Database (Denmark)

Ju, Lian; Cheng, Yongcun; Xu, Qing

2013-01-01

In this paper, the wind structure of hurricane Helene (2006) over the Atlantic Ocean is investigated from a C-band RADARSAT-1 synthetic aperture radar (SAR) image acquired on 20 September 2006. First, the characteristics, e.g., the center, scale and area of the hurricane eye (HE) are determined. ...... observations from the stepped frequency microwave radiometer (SFMR) on NOAA P3 aircraft. All the results show the capability of hurricane monitoring by satellite SAR. Copyright © 2013 by the International Society of Offshore and Polar Engineers (ISOPE)....

Geologic mapping in Greenland with polarimetric SAR

DEFF Research Database (Denmark)

Dall, Jørgen; Madsen, Søren Nørvang; Brooks, C. K.

1995-01-01

The application of synthetic aperture radar (SAR) for geologic mapping in Greenland is investigated by the Danish Center for Remote Sensing (DCRS) in co-operation with the Danish Lithosphere Centre (DLC). In 1994 a pilot project was conducted in East Greenland. The Danish airborne SAR, EMISAR...... mapping is complicated by an extreme topography leading to massive shadowing, foreshortening and layover. An artifact characterised by high cross-polarisation is observed behind many sharp mountain ridges. A multi-reflection hypothesis has been investigated without finding the ultimate proof...

Operational SAR Data Processing in GIS Environments for Rapid Disaster Mapping

Science.gov (United States)

Bahr, Thomas

2014-05-01

The use of SAR data has become increasingly popular in recent years and in a wide array of industries. Having access to SAR can be highly important and critical especially for public safety. Updating a GIS with contemporary information from SAR data allows to deliver a reliable set of geospatial information to advance civilian operations, e.g. search and rescue missions. SAR imaging offers the great advantage, over its optical counterparts, of not being affected by darkness, meteorological conditions such as clouds, fog, etc., or smoke and dust, frequently associated with disaster zones. In this paper we present the operational processing of SAR data within a GIS environment for rapid disaster mapping. For this technique we integrated the SARscape modules for ENVI with ArcGIS®, eliminating the need to switch between software packages. Thereby the premier algorithms for SAR image analysis can be directly accessed from ArcGIS desktop and server environments. They allow processing and analyzing SAR data in almost real time and with minimum user interaction. This is exemplified by the November 2010 flash flood in the Veneto region, Italy. The Bacchiglione River burst its banks on Nov. 2nd after two days of heavy rainfall throughout the northern Italian region. The community of Bovolenta, 22 km SSE of Padova, was covered by several meters of water. People were requested to stay in their homes; several roads, highways sections and railroads had to be closed. The extent of this flooding is documented by a series of Cosmo-SkyMed acquisitions with a GSD of 2.5 m (StripMap mode). Cosmo-SkyMed is a constellation of four Earth observation satellites, allowing a very frequent coverage, which enables monitoring using a very high temporal resolution. This data is processed in ArcGIS using a single-sensor, multi-mode, multi-temporal approach consisting of 3 steps: (1) The single images are filtered with a Gamma DE-MAP filter. (2) The filtered images are geocoded using a reference

Specific Inhibition of the VEGFR-3 Tyrosine Kinase by SAR131675 Reduces Peripheral and Tumor Associated Immunosuppressive Myeloid Cells

Energy Technology Data Exchange (ETDEWEB)

Espagnolle, Nicolas [UMR5273 INSERM U1031/CNRS/EFS StromaLab, Toulouse 31432 (France); Barron, Pauline; Mandron, Marie; Blanc, Isabelle; Bonnin, Jacques [Sanofi Recherche et Développement, Early to Candidate DPU, Toulouse 31036 (France); Agnel, Magali; Kerbelec, Erwan [Molecular Biology Unit, Biologics Department, Sanofi, Vitry-sur-Seine 94400 (France); Herault, Jean Pascal; Savi, Pierre; Bono, Françoise; Alam, Antoine, E-mail: antoine.alam@sanofi.com [Sanofi Recherche et Développement, Early to Candidate DPU, Toulouse 31036 (France)

2014-02-28

Myeloid derived suppressor cells (MDSCs) and tumor-associated macrophages (TAMs) represent prominent components in cancer progression. We previously showed that inhibition of the VEGFR-3 pathway by SAR131675 leads to reduction of TAM infiltration and tumor growth. Here, we found that treatment with SAR131675 prevents the accumulation of immunosuppressive blood and splenic MDSCs which express VEGFR-3, in 4T1 tumor bearing mice. Moreover we showed that soluble factors secreted by tumor cells promote MDSCs proliferation and differentiation into M2 polarized F4/80+ macrophages. In addition, cell sorting and transcriptomic analysis of tumor infiltrating myeloid cells revealed the presence of a heterogeneous population that could be divided into 3 subpopulations: (i) immature cells with a MDSC phenotype (GR1+/CD11b+/F4/80{sup −}); (ii) “immuno-incompetent” macrophages (F4/80{sup high}/CD86{sup neg}/MHCII{sup Low}) strongly expressing M2 markers such as Legumain, CD206 and Mgl1/2 and (iii) “immuno-competent”-M1 like macrophages (F4/80{sup Low}/CD86{sup +}/MHCII{sup High}). SAR131675 treatment reduced MDSCs in lymphoid organs as well as F4/80{sup High} populations in tumors. Interestingly, in the tumor SAR131675 was able to increase the immunocompetent M1 like population (F4/80{sup low}). Altogether these results demonstrate that the specific VEGFR-3 inhibitor SAR131675 exerts its anti tumoral activity by acting on different players that orchestrate immunosuppression and cancer progression in a tumoral context: MDSCs in peripheral lymphoid organs and TAMs infiltrating the tumor.

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

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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.

SAR processing in the cloud for oil detection in the Arctic

Science.gov (United States)

Garron, J.; Stoner, C.; Meyer, F. J.

2016-12-01

A new world of opportunity is being thawed from the ice of the Arctic, driven by decreased persistent Arctic sea-ice cover, increases in shipping, tourism, natural resource development. Tools that can automatically monitor key sea ice characteristics and potential oil spills are essential for safe passage in these changing waters. Synthetic aperture radar (SAR) data can be used to discriminate sea ice types and oil on the ocean surface and also for feature tracking. Additionally, SAR can image the earth through the night and most weather conditions. SAR data is volumetrically large and requires significant computing power to manipulate. Algorithms designed to identify key environmental features, like oil spills, in SAR imagery require secondary processing, and are computationally intensive, which can functionally limit their application in a real-time setting. Cloud processing is designed to manage big data and big data processing jobs by means of small cycles of off-site computations, eliminating up-front hardware costs. Pairing SAR data with cloud processing has allowed us to create and solidify a processing pipeline for SAR data products in the cloud to compare operational algorithms efficiency and effectiveness when run using an Alaska Satellite Facility (ASF) defined Amazon Machine Image (AMI). The products created from this secondary processing, were compared to determine which algorithm was most accurate in Arctic feature identification, and what operational conditions were required to produce the results on the ASF defined AMI. Results will be used to inform a series of recommendations to oil-spill response data managers and SAR users interested in expanding their analytical computing power.

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.

Sentinel-3 SAR Altimetry Toolbox

Science.gov (United States)

Benveniste, Jerome; Lucas, Bruno; DInardo, Salvatore

2015-04-01

The prime objective of the SEOM (Scientific Exploitation of Operational Missions) element is to federate, support and expand the large international research community that the ERS, ENVISAT and the Envelope programmes have build up over the last 20 years for the future European operational Earth Observation missions, the Sentinels. Sentinel-3 builds directly on a proven heritage of ERS-2 and Envisat, and CryoSat-2, with a dual-frequency (Ku and C band) advanced Synthetic Aperture Radar Altimeter (SRAL) that provides measurements at a resolution of ~300m in SAR mode along track. Sentinel-3 will provide exact measurements of sea-surface height along with accurate topography measurements over sea ice, ice sheets, rivers and lakes. The first of the two Sentinels is expected to be launched in early 2015. The current universal altimetry toolbox is BRAT (Basic Radar Altimetry Toolbox) which can read all previous and current altimetry mission's data, but it does not have the capabilities to read the upcoming Sentinel-3 L1 and L2 products. ESA will endeavour to develop and supply this capability to support the users of the future Sentinel-3 SAR Altimetry Mission. BRAT is a collection of tools and tutorial documents designed to facilitate the processing of radar altimetry data. This project started in 2005 from the joint efforts of ESA (European Space Agency) and CNES (Centre National d'Etudes Spatiales), and it is freely available at http://earth.esa.int/brat. The tools enable users to interact with the most common altimetry data formats, the BratGUI is the front-end for the powerful command line tools that are part of the BRAT suite. BRAT can also be used in conjunction with Matlab/IDL (via reading routines) or in C/C++/Fortran via a programming API, allowing the user to obtain desired data, bypassing the data-formatting hassle. BRAT can be used simply to visualise data quickly, or to translate the data into other formats such as netCDF, ASCII text files, KML (Google Earth

Wind class sampling of satellite SAR imagery for offshore wind resource mapping

DEFF Research Database (Denmark)

Badger, Merete; Badger, Jake; Nielsen, Morten

2010-01-01

developed for mesoscale modeling of wind resources. Its performance in connection with sampling of SAR scenes is tested against two sets of random SAR samples and meteorological observations at three sites in the North Sea during 2005–08. Predictions of the mean wind speed and the Weibull scale parameter......High-resolution wind fields retrieved from satellite synthetic aperture radar (SAR) imagery are combined for mapping of wind resources offshore where site measurements are costly and sparse. A new sampling strategy for the SAR scenes is introduced, based on a method for statistical......-dynamical downscaling of large-scale wind conditions using a set of wind classes that describe representative wind situations. One or more SAR scenes are then selected to represent each wind class and the classes are weighted according to their frequency of occurrence. The wind class methodology was originally...

An Advanced Rotation Invariant Descriptor for SAR Image Registration

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Yuming Xiang

2017-07-01

Full Text Available The Scale-Invariant Feature Transform (SIFT algorithm and its many variants have been widely used in Synthetic Aperture Radar (SAR image registration. The SIFT-like algorithms maintain rotation invariance by assigning a dominant orientation for each keypoint, while the calculation of dominant orientation is not robust due to the effect of speckle noise in SAR imagery. In this paper, we propose an advanced local descriptor for SAR image registration to achieve rotation invariance without assigning a dominant orientation. Based on the improved intensity orders, we first divide a circular neighborhood into several sub-regions. Second, rotation-invariant ratio orientation histograms of each sub-region are proposed by accumulating the ratio values of different directions in a rotation-invariant coordinate system. The proposed descriptor is composed of the concatenation of the histograms of each sub-region. In order to increase the distinctiveness of the proposed descriptor, multiple image neighborhoods are aggregated. Experimental results on several satellite SAR images have shown an improvement in the matching performance over other state-of-the-art algorithms.

Emergency product generation for disaster management using RISAT and DMSAR quick look SAR processors

Science.gov (United States)

Desai, Nilesh; Sharma, Ritesh; Kumar, Saravana; Misra, Tapan; Gujraty, Virendra; Rana, SurinderSingh

2006-12-01

Since last few years, ISRO has embarked upon the development of two complex Synthetic Aperture Radar (SAR) missions, viz. Spaceborne Radar Imaging Satellite (RISAT) and Airborne SAR for Disaster Mangement (DMSAR), as a capacity building measure under country's Disaster Management Support (DMS) Program, for estimating the extent of damage over large areas (~75 Km) and also assess the effectiveness of the relief measures undertaken during natural disasters such as cyclones, epidemics, earthquakes, floods and landslides, forest fires, crop diseases etc. Synthetic Aperture Radar (SAR) has an unique role to play in mapping and monitoring of large areas affected by natural disasters especially floods, owing to its unique capability to see through clouds as well as all-weather imaging capability. The generation of SAR images with quick turn around time is very essential to meet the above DMS objectives. Thus the development of SAR Processors, for these two SAR systems poses considerable challenges and design efforts. Considering the growing user demand and inevitable necessity for a full-fledged high throughput processor, to process SAR data and generate image in real or near-real time, the design and development of a generic SAR Processor has been taken up and evolved, which will meet the SAR processing requirements for both Airborne and Spaceborne SAR systems. This hardware SAR processor is being built, to the extent possible, using only Commercial-Off-The-Shelf (COTS) DSP and other hardware plug-in modules on a Compact PCI (cPCI) platform. Thus, the major thrust has been on working out Multi-processor Digital Signal Processor (DSP) architecture and algorithm development and optimization rather than hardware design and fabrication. For DMSAR, this generic SAR Processor operates as a Quick Look SAR Processor (QLP) on-board the aircraft to produce real time full swath DMSAR images and as a ground based Near-Real Time high precision full swath Processor (NRTP). It will

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.

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

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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.

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

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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 MATCHING METHOD TO REDUCE THE INFLUENCE OF SAR GEOMETRIC DEFORMATION

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C. Gao

2018-04-01

Full Text Available There are large geometrical deformations in SAR image, including foreshortening, layover, shade，which leads to SAR Image matching with low accuracy. Especially in complex terrain area, the control points are difficult to obtain, and the matching is difficult to achieve. Considering the impact of geometric distortions in SAR image pairs, a matching algorithm with a combination of speeded up robust features (SURF and summed of normalize cross correlation (SNCC was proposed, which can avoid the influence of SAR geometric deformation. Firstly, SURF algorithm was utilized to predict the search area. Then the matching point pairs was selected based on summed of normalized cross correlation. Finally, false match points were eliminated by the bidirectional consistency. SURF algorithm can control the range of matching points, and the matching points extracted from the deformation area are eliminated, and the matching points with stable and even distribution are obtained. The experimental results demonstrated that the proposed algorithm had high precision, and can effectively avoid the effect of geometric distortion on SAR image matching. Meet accuracy requirements of the block adjustment with sparse control points.

Ionospheric errors compensation for ground deformation estimation with new generation SAR

Science.gov (United States)

Gomba, Giorgio; De Zan, Francesco; Rodriguez Gonzalez, Fernando

2017-04-01

Synthetic aperture radar (SAR) and interferometric SAR (InSAR) measurements are disturbed by the propagation velocity changes of microwaves that are caused by the high density of free electrons in the ionosphere. Most affected are low-frequency (L- or P-band) radars, as the recently launched ALOS-2 and the future Tandem-L and NISAR, although higher frequency (C- or X-band) systems, as the recently launched Sentinel-1, are not immune. Since the ionosphere is an obstacle to increasing the precision of new generation SAR systems needed to remotely measure the Earth's dynamic processes as for example ground deformation, it is necessary to estimate and compensate ionospheric propagation delays in SAR signals. In this work we discuss about the influence of the ionosphere on interferograms and the possible correction methods with relative accuracies. Consequently, the effect of ionospheric induced errors on ground deformation measurements prior and after ionosphere compensation will be analyzed. Examples will be presented of corrupted measurements of earthquakes and fault motion along with the corrected results using different methods.

Estimating snow water equivalent (SWE) using interferometric synthetic aperture radar (InSAR)

Science.gov (United States)

Deeb, Elias J.

Since the early 1990s, radar interferometry and interferometric synthetic aperture radar (InSAR) have been used extensively to measure changes in the Earth's surface. Previous research has presented theory for estimating snow properties, including potential for snow water equivalent (SWE) retrieval, using InSAR. The motivation behind using remote sensing to estimate SWE is to provide a more complete, continuous set of "observations" to assist in water management operations, climate change studies, and flood hazard forecasting. The research presented here primarily investigates the feasibility of using the InSAR technique at two different wavelengths (C-Band and L-Band) for SWE retrieval of dry snow within the Kuparuk watershed, North Slope, Alaska. Estimating snow distribution around meteorological towers on the coastal plain using a three-day repeat orbit of C-Band InSAR data was successful (Chapter 2). A longer wavelength L-band SAR is evaluated for SWE retrievals (Chapter 3) showing the ability to resolve larger snow accumulation events over a longer period of time. Comparisons of InSAR estimates and late spring manual sampling of SWE show a R2 = 0.61 when a coherence threshold is used to eliminate noisy SAR data. Qualitative comparisons with a high resolution digital elevation model (DEM) highlight areas of scour on windward slopes and areas of deposition on leeward slopes. When compared to a mid-winter transect of manually sampled snow depths, the InSAR SWE estimates yield a RMSE of 2.21cm when a bulk snow density is used and corrections for bracketing the satellite acquisition timing is performed. In an effort to validate the interaction of radar waves with a snowpack, the importance of the "dry snow" assumption for the estimation of SWE using InSAR is tested with an experiment in Little Cottonwood Canyon, Alta, Utah (Chapter 5). Snow wetness is shown to have a significant effect on the velocity of propagation within the snowpack. Despite the radar

Training Convolutional Neural Networks for Translational Invariance on SAR ATR

DEFF Research Database (Denmark)

Malmgren-Hansen, David; Engholm, Rasmus; Østergaard Pedersen, Morten

2016-01-01

In this paper we present a comparison of the robustness of Convolutional Neural Networks (CNN) to other classifiers in the presence of uncertainty of the objects localization in SAR image. We present a framework for simulating simple SAR images, translating the object of interest systematically...

Underwater Topography Detection in Coastal Areas Using Fully Polarimetric SAR Data

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Xiaolin Bian

2017-06-01

Full Text Available Fully polarimetric synthetic aperture radar (SAR can provide detailed information on scattering mechanisms that could enable the target or structure to be identified. This paper presents a method to detect underwater topography in coastal areas using high resolution fully polarimetric SAR data, while less prior information is required. The method is based on the shoaling and refraction of long surface gravity waves as they propagate shoreward. First, the surface scattering component is obtained by polarization decomposition. Then, wave fields are retrieved from the two-dimensional (2D spectra by the Fast Fourier Transformation (FFT. Finally, shallow water depths are estimated from the dispersion relation. Applicability and effectiveness of the proposed methodology are tested by using C-band fine quad-polarization mode RADARSAT-2 SAR data over the near-shore area of the Hainan province, China. By comparing with the values from an official electronic navigational chart (ENC, the estimated water depths are in good agreement with them. The average relative error of the detected results from the scattering mechanisms based method and single polarization SAR data are 9.73% and 11.53% respectively. The validation results indicate that the scattering mechanisms based methodology is more effective than only using the single polarization SAR data for underwater topography detection, and will inspire further research on underwater topography detection with fully polarimetric SAR data.

Stochastic modeling for time series InSAR: with emphasis on atmospheric effects

Science.gov (United States)

Cao, Yunmeng; Li, Zhiwei; Wei, Jianchao; Hu, Jun; Duan, Meng; Feng, Guangcai

2018-02-01

Despite the many applications of time series interferometric synthetic aperture radar (TS-InSAR) techniques in geophysical problems, error analysis and assessment have been largely overlooked. Tropospheric propagation error is still the dominant error source of InSAR observations. However, the spatiotemporal variation of atmospheric effects is seldom considered in the present standard TS-InSAR techniques, such as persistent scatterer interferometry and small baseline subset interferometry. The failure to consider the stochastic properties of atmospheric effects not only affects the accuracy of the estimators, but also makes it difficult to assess the uncertainty of the final geophysical results. To address this issue, this paper proposes a network-based variance-covariance estimation method to model the spatiotemporal variation of tropospheric signals, and to estimate the temporal variance-covariance matrix of TS-InSAR observations. The constructed stochastic model is then incorporated into the TS-InSAR estimators both for parameters (e.g., deformation velocity, topography residual) estimation and uncertainty assessment. It is an incremental and positive improvement to the traditional weighted least squares methods to solve the multitemporal InSAR time series. The performance of the proposed method is validated by using both simulated and real datasets.

A comparative study on methods of improving SCR for ship detection in SAR image

Science.gov (United States)

Lang, Haitao; Shi, Hongji; Tao, Yunhong; Ma, Li

2017-10-01

Knowledge about ship positions plays a critical role in a wide range of maritime applications. To improve the performance of ship detector in SAR image, an effective strategy is improving the signal-to-clutter ratio (SCR) before conducting detection. In this paper, we present a comparative study on methods of improving SCR, including power-law scaling (PLS), max-mean and max-median filter (MMF1 and MMF2), method of wavelet transform (TWT), traditional SPAN detector, reflection symmetric metric (RSM), scattering mechanism metric (SMM). The ability of SCR improvement to SAR image and ship detection performance associated with cell- averaging CFAR (CA-CFAR) of different methods are evaluated on two real SAR data.

ALGORITHM OF SAR SATELLITE ATTITUDE MEASUREMENT USING GPS AIDED BY KINEMATIC VECTOR

Institute of Scientific and Technical Information of China (English)

无

2007-01-01

In this paper, in order to improve the accuracy of the Synthetic Aperture Radar (SAR)satellite attitude using Global Positioning System (GPS) wide-band carrier phase, the SAR satellite attitude kinematic vector and Kalman filter are introduced. Introducing the state variable function of GPS attitude determination algorithm in SAR satellite by means of kinematic vector and describing the observation function by the GPS wide-band carrier phase, the paper uses the Kalman filter algorithm to obtian the attitude variables of SAR satellite. Compared the simulation results of Kalman filter algorithm with the least square algorithm and explicit solution, it is indicated that the Kalman filter algorithm is the best.

Measurement of Subsidence in the Yangbajain Geothermal Fields from TerraSAR-X

Science.gov (United States)

Li, Yongsheng; Zhang, Jingfa; Li, Zhenhong

2016-08-01

Yangbajain contains the largest geothermal energy power station in China. Geothermal explorations in Yangbajain first started in 1976, and two plants were subsequently built in 1981 and 1986. A large amount of geothermal fluids have been extracted since then, leading to considerable surface subsidence around the geothermal fields. In this paper, InSAR time series analysis is applied to map the subsidence of the Yangbajain geothermal fields during the period from December 2011 to November 2012 using 16 senses of TerraSAR-X stripmap SAR images. Due to its high resolution and short repeat cycle, TerraSAR-X provides detailed surface deformation information at the Yangbajain geothermal fields.

SAR image dataset of military ground targets with multiple poses for ATR

Science.gov (United States)

Belloni, Carole; Balleri, Alessio; Aouf, Nabil; Merlet, Thomas; Le Caillec, Jean-Marc

2017-10-01

Automatic Target Recognition (ATR) is the task of automatically detecting and classifying targets. Recognition using Synthetic Aperture Radar (SAR) images is interesting because SAR images can be acquired at night and under any weather conditions, whereas optical sensors operating in the visible band do not have this capability. Existing SAR ATR algorithms have mostly been evaluated using the MSTAR dataset.1 The problem with the MSTAR is that some of the proposed ATR methods have shown good classification performance even when targets were hidden,2 suggesting the presence of a bias in the dataset. Evaluations of SAR ATR techniques are currently challenging due to the lack of publicly available data in the SAR domain. In this paper, we present a high resolution SAR dataset consisting of images of a set of ground military target models taken at various aspect angles, The dataset can be used for a fair evaluation and comparison of SAR ATR algorithms. We applied the Inverse Synthetic Aperture Radar (ISAR) technique to echoes from targets rotating on a turntable and illuminated with a stepped frequency waveform. The targets in the database consist of four variants of two 1.7m-long models of T-64 and T-72 tanks. The gun, the turret position and the depression angle are varied to form 26 different sequences of images. The emitted signal spanned the frequency range from 13 GHz to 18 GHz to achieve a bandwidth of 5 GHz sampled with 4001 frequency points. The resolution obtained with respect to the size of the model targets is comparable to typical values obtained using SAR airborne systems. Single polarized images (Horizontal-Horizontal) are generated using the backprojection algorithm.3 A total of 1480 images are produced using a 20° integration angle. The images in the dataset are organized in a suggested training and testing set to facilitate a standard evaluation of SAR ATR algorithms.

Utility of Characterizing and Monitoring Suspected Underground Nuclear Sites with VideoSAR

Science.gov (United States)

Dauphin, S. M.; Yocky, D. A.; Riley, R.; Calloway, T. M.; Wahl, D. E.

2016-12-01

Sandia National Laboratories proposed using airborne synthetic aperture RADAR (SAR) collected in VideoSAR mode to characterize the Underground Nuclear Explosion Signature Experiment (UNESE) test bed site at the Nevada National Security Site (NNSS). The SNL SAR collected airborne, Ku-band (16.8 GHz center frequency), 0.2032 meter ground resolution over NNSS in August 2014 and X-band (9.6 GHz), 0.1016 meter ground resolution fully-polarimetric SAR in April 2015. This paper reports the findings of processing and exploiting VideoSAR for creating digital elevation maps, detecting cultural artifacts and exploiting full-circle polarimetric signatures. VideoSAR collects a continuous circle of phase history data, therefore, imagery can be formed over the 360-degrees of the site. Since the Ku-band VideoSAR had two antennas suitable for interferometric digital elevation mapping (DEM), DEMs could be generated over numerous aspect angles, filling in holes created by targets with height by imaging from all sides. Also, since the X-band VideoSAR was fully-polarimetric, scattering signatures could be gleaned from all angles also. Both of these collections can be used to find man-made objects and changes in elevation that might indicate testing activities. VideoSAR provides a unique, coherent measure of ground objects allowing one to create accurate DEMS, locate man-made objects, and identify scattering signatures via polarimetric exploitation. Sandia National Laboratories is a multi-program laboratory managed and operated by Sandia Corporation, a wholly owned subsidiary of Lockheed Martin Corporation, for the U.S. Department of Energy's National Nuclear Security Administration under contract DE-AC04-94AL85000. The authors would like to thank the National Nuclear Security Administration, Defense Nuclear Nonproliferation Research and Development, for sponsoring this work. We would also like to thank the Underground Nuclear Explosion Signatures Experiment team, a multi

SAR Data Fusion Imaging Method Oriented to Target Feature Extraction

Directory of Open Access Journals (Sweden)

Yang Wei

2015-02-01

Full Text Available To deal with the difficulty for target outlines extracting precisely due to neglect of target scattering characteristic variation during the processing of high-resolution space-borne SAR data, a novel fusion imaging method is proposed oriented to target feature extraction. Firstly, several important aspects that affect target feature extraction and SAR image quality are analyzed, including curved orbit, stop-and-go approximation, atmospheric delay, and high-order residual phase error. Furthermore, the corresponding compensation methods are addressed as well. Based on the analysis, the mathematical model of SAR echo combined with target space-time spectrum is established for explaining the space-time-frequency change rule of target scattering characteristic. Moreover, a fusion imaging strategy and method under high-resolution and ultra-large observation angle range conditions are put forward to improve SAR quality by fusion processing in range-doppler and image domain. Finally, simulations based on typical military targets are used to verify the effectiveness of the fusion imaging method.

Feature extraction for SAR target recognition based on supervised manifold learning

International Nuclear Information System (INIS)

Du, C; Zhou, S; Sun, J; Zhao, J

2014-01-01

On the basis of manifold learning theory, a new feature extraction method for Synthetic aperture radar (SAR) target recognition is proposed. First, the proposed algorithm estimates the within-class and between-class local neighbourhood surrounding each SAR sample. After computing the local tangent space for each neighbourhood, the proposed algorithm seeks for the optimal projecting matrix by preserving the local within-class property and simultaneously maximizing the local between-class separability. The use of uncorrelated constraint can also enhance the discriminating power of the optimal projecting matrix. Finally, the nearest neighbour classifier is applied to recognize SAR targets in the projected feature subspace. Experimental results on MSTAR datasets demonstrate that the proposed method can provide a higher recognition rate than traditional feature extraction algorithms in SAR target recognition

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.

Polarimetric SAR interferometry applied to land ice: modeling

DEFF Research Database (Denmark)

Dall, Jørgen; Papathanassiou, Konstantinos; Skriver, Henning

2004-01-01

This paper introduces a few simple scattering models intended for the application of polarimetric SAR interfer-ometry to land ice. The principal aim is to eliminate the penetration bias hampering ice sheet elevation maps generated with single-channel SAR interferometry. The polarimetric coherent...... scattering models are similar to the oriented-volume model and the random-volume-over-ground model used in vegetation studies, but the ice models are adapted to the different geometry of land ice. Also, due to compaction, land ice is not uniform; a fact that must be taken into account for large penetration...... depths. The validity of the scattering models is examined using L-band polarimetric interferometric SAR data acquired with the EMISAR system over an ice cap located in the percolation zone of the Greenland ice sheet. Radar reflectors were deployed on the ice surface prior to the data acquisition in order...

Application of SAR interferometry to low-rate crustal deformation fields

Science.gov (United States)

Vincent, Paul

Differential SAR interferometry is applied to the study of low-rate interseismic crustal deformation fields along three regions of the San Adreas fault system: Salton Sea (southernmost region), Pinto Mountain fault (south-central region), and San Francisco Bay (northern region). New techniques are developed to analyze and model these low-rate deformation fields including constrained horizontal-vertical component deconvolution, deformation phase pattern analysis and strain field evolution modeling. Several new active faults were discovered as well as unmeasured activity on existing faults in the process of this SAR interferometry study. The feasibility and limitations of InSAR as a tool to study low-rate deformation fields is also addressed.

Multiple Input - Multiple Output (MIMO) SAR

Data.gov (United States)

National Aeronautics and Space Administration — This effort will research and implement advanced Multiple-Input Multiple-Output (MIMO) Synthetic Aperture Radar (SAR) techniques which have the potential to improve...

SAR data for the analysis of forest features: current Brazilian experiences

Directory of Open Access Journals (Sweden)

Fábio Guimarães Gonçalves

2007-06-01

Full Text Available This article presents some applications of airborne polarimetric and/or interferometric microwave data to improve the knowledge of forest structures. Three airborne SAR (Synthetic Aperture Radar experiments were done in the Amazon tropical forest: (a to study the spatial distribution of very large trees (VLTs in the primary forest using local maximum filtering and a series of Markov processes; (b to model the estimation of biomass variations in primary and secondary forests; (c to analyze the retrieval timber volume over selective logging areas. Another experiment (d was to investigate the relation among SAR data and the volumetric configuration in stands of Eucalyptus sp done by an airborne SAR imaging mission in SE-Brazil. To perform the objectives (b, (c and (d we carry out regression techniques, using variables got from multipolarimetric and/or interferometric SAR attributes and biophysical parameters from the forest cover. All data from the experiments were calibrated radiometrically to extract information during digital processing, besides an exhaustive field survey which was done simultaneously to SAR imaging, to know the physiognomy/structure of forest typology and to support the models produced for each case. The results of this series of experiments show advances at the techniques to treat SAR data, focusing on models of stand architecture and forest stock density. This will be helpful to increase the regional inventory and surveying procedures of forest conversion in the Brazilian territory in the near future.

SAR data for the analysis of forest features: current Brazilian experiences

Directory of Open Access Journals (Sweden)

Fábio Guimarães Gonçalves

2006-12-01

Full Text Available This article presents some applications of airborne polarimetric and/or interferometric microwave data to improve the knowledge of forest structures. Three airborne SAR (Synthetic Aperture Radar experiments were done in the Amazon tropical forest: (a to study the spatial distribution of very large trees (VLTs in the primary forest using local maximum filtering and a series of Markov processes; (b to model the estimation of biomass variations in primary and secondary forests; (c to analyze the retrieval of timber volume over selective logging areas. Another experiment (d was to investigate the relation among SAR data and the volumetric configuration in stands of Eucalyptus sp. done by an airborne SAR imaging mission in SE-Brazil. To perform the objectives (b, (c and (d we carry out regression techniques, using variables got from multipolarimetric and/or interferometric SAR attributes and biophysical parameters from the forest cover. All data from the experiments were calibrated radiometrically to extract information during digital processing, besides an exhaustive field survey which was done simultaneously to SAR imaging, to know the physiognomy/structure of forest typology and to support the models produced for each case. The results of this series of experiments show advances at the techniques to treat SAR data, focusing on models of stand architecture and forest stock density. This will be helpful to increase the regional inventory and surveying procedures of forest conversion in the Brazilian territory in the near future.

SAR image classification based on CNN in real and simulation datasets

Science.gov (United States)

Peng, Lijiang; Liu, Ming; Liu, Xiaohua; Dong, Liquan; Hui, Mei; Zhao, Yuejin

2018-04-01

Convolution neural network (CNN) has made great success in image classification tasks. Even in the field of synthetic aperture radar automatic target recognition (SAR-ATR), state-of-art results has been obtained by learning deep representation of features on the MSTAR benchmark. However, the raw data of MSTAR have shortcomings in training a SAR-ATR model because of high similarity in background among the SAR images of each kind. This indicates that the CNN would learn the hierarchies of features of backgrounds as well as the targets. To validate the influence of the background, some other SAR images datasets have been made which contains the simulation SAR images of 10 manufactured targets such as tank and fighter aircraft, and the backgrounds of simulation SAR images are sampled from the whole original MSTAR data. The simulation datasets contain the dataset that the backgrounds of each kind images correspond to the one kind of backgrounds of MSTAR targets or clutters and the dataset that each image shares the random background of whole MSTAR targets or clutters. In addition, mixed datasets of MSTAR and simulation datasets had been made to use in the experiments. The CNN architecture proposed in this paper are trained on all datasets mentioned above. The experimental results shows that the architecture can get high performances on all datasets even the backgrounds of the images are miscellaneous, which indicates the architecture can learn a good representation of the targets even though the drastic changes on background.

Beyond PSInSAR: the SQUEESAR Approach

Science.gov (United States)

Ferretti, A.; Novali, F.; Fumagalli, A.; Prati, C.; Rocca, F.; Rucci, A.

2009-12-01

After a decade since the first results on ERS data, Permanent Scatterer (PS) InSAR has become an operational technology for detecting and monitoring slow surface deformation phenomena such as subsidence and uplift, landslides, seismic fault creeping, volcanic inflation, etc. Processing procedures have been continuously updated, but the core of the algorithm has not been changed significantly. As well known, in PSInSAR, the main target is the identification of individual pixels that exhibit a “PS behavior”, i.e. they are only slightly affected by both temporal and geometrical decorrelation. Typically, these scatterers correspond to man-made objects, but PS have been identified also in non-urban areas, where exposed rocks or outcrops can indeed create good radar benchmarks and enable high-quality displacement measurements. Contrary to interferogram stacking techniques, PS analyses are carried out on a pixel-by-pixel basis, with no filtering of the interferograms, in order to preserve phase values from possible incoherent clutter surrounding good radar targets. In fact, any filtering process implies a spatial smoothing of the data that could compromise - rather than improve - phase coherence, at least for isolated PS. Although the PS approach usually allows one to retrieve high quality deformation measurements on a sparse grid of good radar targets, in some datasets it is quite evident how the number of pixels where some information can be extracted could be significantly increased by relaxing the hypothesis on target coherence and searching for pixels where the coherence level is high enough at least in some interferograms of the data-stack, not necessarily all. The idea of computing a “coherence matrix” for each pixel of the area of interest have been already proposed in previous papers, together with a statistical estimation of some physical parameters of interest (e.g. the average displacement rate) based on the covariance matrix. In past publications

Comparisons of Circular Transmit and Linear Receive Compact Polarimetric SAR Features for Oil Slicks Discrimination

Directory of Open Access Journals (Sweden)

Yu Li

2015-01-01

Full Text Available Compact polarimetric (CP synthetic aperture radar (SAR has proven its potential in distinguishing oil slicks and look-alikes. Polarimetric information can be retrieved directly from scattering vector or from reconstructed pseudo-Quad-Pol covariance matrix of CP SAR data. In this paper, we analysed features from Circular Transmit and Linear Receive (CTLR CP SAR data that are derived by taking both of these two methods. K-means clustering followed by accuracy assessment was also implemented for performance evaluation. Through experiments that were conducted based on L-band UAVSAR fully polarimetric data, it was found that optimum extraction methods varied for different features. The histogram analysis and segmentation results also demonstrated the comparable performance of CP SAR features in distinguishing different damping properties within oil slicks. This study proposed a framework of statistically analyzing polarimetric SAR (Pol-SAR features and provided guidelines for determining optimum feature extraction methods from CP SAR data and for marine oil-spills detection and classification.

Analysis of the Effect of Radio Frequency Interference on Repeat Track Airborne InSAR System

Directory of Open Access Journals (Sweden)

Ding Bin

2012-03-01

Full Text Available The SAR system operating at low frequency is susceptible to Radio Frequency Interference (RFI from television station, radio station, and some other civil electronic facilities. The presence of RFI degrades the SAR image quality, and obscures the targets in the scene. Furthermore, RFI can cause interferometric phase error in repeat track InSAR system. In order to analyze the effect of RFI on interferometric phase of InSAR, real measured RFI signal are added on cone simulated SAR echoes. The imaging and interferometric processing results of both the RFI-contaminated and raw data are given. The effect of real measured RFI signal on repeat track InSAR system is analyzed. Finally, the imaging and interferometric processing results of both with and without RFI suppressed of the P band airborne repeat track InSAR real data are presented, which demonstrates the efficiency of the RFI suppression method in terms of decreasing the interferometric phase errors caused by RFI.

Stalking SARS: CDC at Work

Centers for Disease Control (CDC) Podcasts

2014-05-22

In this podcast for kids, the Kidtastics talk about the SARS outbreak and how CDC worked to solve the mystery.  Created: 5/22/2014 by National Center for Immunization and Respiratory Diseases (NCIRD).   Date Released: 5/22/2014.

Azimuth Ambiguities Removal in Littoral Zones Based on Multi-Temporal SAR Images

Directory of Open Access Journals (Sweden)

Xiangguang Leng

2017-08-01

Full Text Available Synthetic aperture radar (SAR is one of the most important techniques for ocean monitoring. Azimuth ambiguities are a real problem in SAR images today, which can cause performance degradation in SAR ocean applications. In particular, littoral zones can be strongly affected by land-based sources, whereas they are usually regions of interest (ROI. Given the presence of complexity and diversity in littoral zones, azimuth ambiguities removal is a tough problem. As SAR sensors can have a repeat cycle, multi-temporal SAR images provide new insight into this problem. A method for azimuth ambiguities removal in littoral zones based on multi-temporal SAR images is proposed in this paper. The proposed processing chain includes co-registration, local correlation, binarization, masking, and restoration steps. It is designed to remove azimuth ambiguities caused by fixed land-based sources. The idea underlying the proposed method is that sea surface is dynamic, whereas azimuth ambiguities caused by land-based sources are constant. Thus, the temporal consistence of azimuth ambiguities is higher than sea clutter. It opens up the possibilities to use multi-temporal SAR data to remove azimuth ambiguities. The design of the method and the experimental procedure are based on images from the Sentinel data hub of Europe Space Agency (ESA. Both Interferometric Wide Swath (IW and Stripmap (SM mode images are taken into account to validate the proposed method. This paper also presents two RGB composition methods for better azimuth ambiguities visualization. Experimental results show that the proposed method can remove azimuth ambiguities in littoral zones effectively.

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

Directory of Open Access Journals (Sweden)

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.

Chronic widespread musculoskeletal pain, fatigue, depression and disordered sleep in chronic post-SARS syndrome; a case-controlled study.

Science.gov (United States)

Moldofsky, Harvey; Patcai, John

2011-03-24

The long term adverse effects of Severe Acute Respiratory Syndrome (SARS), a viral disease, are poorly understood. Sleep physiology, somatic and mood symptoms of 22 Toronto subjects, 21 of whom were healthcare workers, (19 females, 3 males, mean age 46.29 yrs.+/- 11.02) who remained unable to return to their former occupation (mean 19.8 months, range: 13 to 36 months following SARS) were compared to 7 healthy female subjects. Because of their clinical similarities to patients with fibromyalgia syndrome (FMS) these post-SARS subjects were similarly compared to 21 drug free female patients, (mean age 42.4 +/- 11.8 yrs.) who fulfilled criteria for fibromyalgia. Chronic post-SARS is characterized by persistent fatigue, diffuse myalgia, weakness, depression, and nonrestorative sleep with associated REM-related apneas/hypopneas, an elevated sleep EEG cyclical alternating pattern, and alpha EEG sleep anomaly. Post- SARS patients had symptoms of pre and post-sleep fatigue and post sleep sleepiness that were similar to the symptoms of patients with FMS, and similar to symptoms of patients with chronic fatigue syndrome. Both post-SARS and FMS groups had sleep instability as indicated by the high sleep EEG cyclical alternating pattern rate. The post-SARS group had a lower rating of the alpha EEG sleep anomaly as compared to the FMS patients. The post-SARS group also reported less pre-sleep and post-sleep musculoskeletal pain symptoms. The clinical and sleep features of chronic post-SARS form a syndrome of chronic fatigue, pain, weakness, depression and sleep disturbance, which overlaps with the clinical and sleep features of FMS and chronic fatigue syndrome.

Object Georeferencing in UAV-Based SAR Terrain Images

Directory of Open Access Journals (Sweden)

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.

MM wave SAR sensor design: Concept for an airborne low level reconnaissance system

Science.gov (United States)

Boesswetter, C.

1986-07-01

The basic system design considerations for a high resolution SAR system operating at 35 GHz or 94 GHz are given. First it is shown that only the focussed SAR concept in the side looking configuration matches the requirements and constraints. After definition of illumination geometry and airborne modes the fundamental SAR parameters in range and azimuth direction are derived. A review of the performance parameters of some critical mm wave components (coherent pulsed transmitters, front ends, antennas) establish the basis for further analysis. The power and contrast budget in the processed SAR image shows the feasibility of a 35/94 GHz SAR sensor design. The discussion of the resulting system parameters points out that this unusual system design implies both benefits and new risk areas. One of the benefits besides the compactness of sensor hardware turns out to be the short synthetic aperture length simplifying the design of the digital SAR processor, preferably operating in real time. A possible architecture based on current state-of-the-art correlator hardware is shown. One of the potential risk areas in achieving high resolution SAR imagery in the mm wave frequency band is motion compensation. However, it is shown that the short range and short synthetic aperture lengths ease the problem so that correction of motion induced phase errors and thus focussed synthetic aperture processing should be possible.

Multi-Frequency Polarimetric SAR Classification Based on Riemannian Manifold and Simultaneous Sparse Representation

Directory of Open Access Journals (Sweden)

Fan Yang

2015-07-01

Full Text Available Normally, polarimetric SAR classification is a high-dimensional nonlinear mapping problem. In the realm of pattern recognition, sparse representation is a very efficacious and powerful approach. As classical descriptors of polarimetric SAR, covariance and coherency matrices are Hermitian semidefinite and form a Riemannian manifold. Conventional Euclidean metrics are not suitable for a Riemannian manifold, and hence, normal sparse representation classification cannot be applied to polarimetric SAR directly. This paper proposes a new land cover classification approach for polarimetric SAR. There are two principal novelties in this paper. First, a Stein kernel on a Riemannian manifold instead of Euclidean metrics, combined with sparse representation, is employed for polarimetric SAR land cover classification. This approach is named Stein-sparse representation-based classification (SRC. Second, using simultaneous sparse representation and reasonable assumptions of the correlation of representation among different frequency bands, Stein-SRC is generalized to simultaneous Stein-SRC for multi-frequency polarimetric SAR classification. These classifiers are assessed using polarimetric SAR images from the Airborne Synthetic Aperture Radar (AIRSAR sensor of the Jet Propulsion Laboratory (JPL and the Electromagnetics Institute Synthetic Aperture Radar (EMISAR sensor of the Technical University of Denmark (DTU. Experiments on single-band and multi-band data both show that these approaches acquire more accurate classification results in comparison to many conventional and advanced classifiers.

3D Tomographic SAR Imaging in Densely Vegetated Mountainous Rural Areas in China and Sweden

Science.gov (United States)

Feng, L.; Muller, J. P., , Prof

2017-12-01

3D SAR Tomography (TomoSAR) and 4D SAR Differential Tomography (Diff-TomoSAR) exploit multi-baseline SAR data stacks to create an important new innovation of SAR Interferometry, to unscramble complex scenes with multiple scatterers mapped into the same SAR cell. In addition to this 3-D shape reconstruction and deformation solution in complex urban/infrastructure areas, and recent cryospheric ice investigations, emerging tomographic remote sensing applications include forest applications, e.g. tree height and biomass estimation, sub-canopy topographic mapping, and even search, rescue and surveillance. However, these scenes are characterized by temporal decorrelation of scatterers, orbital, tropospheric and ionospheric phase distortion and an open issue regarding possible height blurring and accuracy losses for TomoSAR applications particularly in densely vegetated mountainous rural areas. Thus, it is important to develop solutions for temporal decorrelation, orbital, tropospheric and ionospheric phase distortion.We report here on 3D imaging (especially in vertical layers) over densely vegetated mountainous rural areas using 3-D SAR imaging (SAR tomography) derived from data stacks of X-band COSMO-SkyMed Spotlight and L band ALOS-1 PALSAR data stacks over Dujiangyan Dam, Sichuan, China and L and P band airborne SAR data (BioSAR 2008 - ESA) in the Krycklan river catchment, Northern Sweden. The new TanDEM-X 12m DEM is used to assist co - registration of all the data stacks over China first. Then, atmospheric correction is being assessed using weather model data such as ERA-I, MERRA, MERRA-2, WRF; linear phase-topography correction and MODIS spectrometer correction will be compared and ionospheric correction methods are discussed to remove tropospheric and ionospheric delay. Then the new TomoSAR method with the TanDEM-X 12m DEM is described to obtain the number of scatterers inside each pixel, the scattering amplitude and phase of each scatterer and finally extract

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 Singaporean response to the SARS outbreak: knowledge sufficiency versus public trust.

Science.gov (United States)

Deurenberg-Yap, M; Foo, L L; Low, Y Y; Chan, S P; Vijaya, K; Lee, M

2005-12-01

During the outbreak of severe acute respiratory syndrome (SARS) in Singapore from 1 March to 11 May 2003, various national prevention and control measures were undertaken to control and eliminate the transmission of the infection. During the initial period of the epidemic, public communication was effected through press releases and media coverage of the epidemic. About a month into the epidemic, a public education campaign was mounted to educate Singaporeans on SARS and adoption of appropriate behaviours to prevent the spread of the disease. A survey was conducted in late April 2003 to assess Singaporeans' knowledge about SARS and infection control measures, and their concerns and anxiety in relation to the outbreak. The survey also sought to assess their confidence in the ability of various institutions to deal with SARS and their opinion on the seemingly tough measures enforced. The study involved 853 adults selected from a telephone-sampling frame. Stratified sampling was used to ensure adequate representation from major ethnic groups and age groups. The study showed that the overall knowledge about SARS and control measures undertaken was low (mean per cent score of 24.5 +/- 8.9%). While 82% of respondents expressed confidence in measures undertaken by Tan Tock Seng Hospital (the hospital designated to manage SARS), only 36% had confidence in nursing homes. However, >80% of the public agreed that the preventive and control measures instituted were appropriate. Despite the low knowledge score, the overall mean satisfaction score of the government's response to SARS was 4.47 (out of possible highest score of 5.00), with >93% of adult Singaporeans indicating that they were satisfied or very satisfied with the government's response to SARS. Generally, Singaporeans had a high level of public trust (satisfaction with government, confidence in institutions, deeming government measures appropriate), scoring 11.4 out of possible maximum of 14. The disparity between low

SAR image formation with azimuth interpolation after azimuth transform

Science.gov (United States)

Doerry,; Armin W. , Martin; Grant D. , Holzrichter; Michael, W [Albuquerque, NM

2008-07-08

Two-dimensional SAR data can be processed into a rectangular grid format by subjecting the SAR data to a Fourier transform operation, and thereafter to a corresponding interpolation operation. Because the interpolation operation follows the Fourier transform operation, the interpolation operation can be simplified, and the effect of interpolation errors can be diminished. This provides for the possibility of both reducing the re-grid processing time, and improving the image quality.

Literature-Related Discovery: Potential Treatments and Preventives for SARS

Science.gov (United States)

2010-01-01

We recently demonstrated that kefir modulates the immune response in mice, increasing the number of IgA+ cells in the intestinal and bronchial...retrieval and analysis of the core SARS literature and literatures related directly to the core SARS literature (e.g., immune system component literatures...According to recent reviews of the pandemic, none of the drugs worked. Those who recovered did so by natural means; their immune systems were

Restoration of polarimetric SAR images using simulated annealing

DEFF Research Database (Denmark)

Schou, Jesper; Skriver, Henning

2001-01-01

approach favoring one of the objectives. An algorithm for estimating the radar cross-section (RCS) for intensity SAR images has previously been proposed in the literature based on Markov random fields and the stochastic optimization method simulated annealing. A new version of the algorithm is presented......Filtering synthetic aperture radar (SAR) images ideally results in better estimates of the parameters characterizing the distributed targets in the images while preserving the structures of the nondistributed targets. However, these objectives are normally conflicting, often leading to a filtering...

Detection of sinkhole precursors through SAR interferometry: radar and geological considerations

CSIR Research Space (South Africa)

Theron, Andre

2017-06-01

Full Text Available TerraSAR-X were acquired over a full year. DInSAR results revealed the presence of three previously unknown deformation features, one of which could be confirmed by subsequent field investigations. Furthermore, a water supply pipeline ruptured six months...

Methods of evaluating the effects of coding on SAR data

Science.gov (United States)

Dutkiewicz, Melanie; Cumming, Ian

1993-01-01

It is recognized that mean square error (MSE) is not a sufficient criterion for determining the acceptability of an image reconstructed from data that has been compressed and decompressed using an encoding algorithm. In the case of Synthetic Aperture Radar (SAR) data, it is also deemed to be insufficient to display the reconstructed image (and perhaps error image) alongside the original and make a (subjective) judgment as to the quality of the reconstructed data. In this paper we suggest a number of additional evaluation criteria which we feel should be included as evaluation metrics in SAR data encoding experiments. These criteria have been specifically chosen to provide a means of ensuring that the important information in the SAR data is preserved. The paper also presents the results of an investigation into the effects of coding on SAR data fidelity when the coding is applied in (1) the signal data domain, and (2) the image domain. An analysis of the results highlights the shortcomings of the MSE criterion, and shows which of the suggested additional criterion have been found to be most important.

The InSAR Scientific Computing Environment (ISCE): A Python Framework for Earth Science

Science.gov (United States)

Rosen, P. A.; Gurrola, E. M.; Agram, P. S.; Sacco, G. F.; Lavalle, M.

2015-12-01

The InSAR Scientific Computing Environment (ISCE, funded by NASA ESTO) provides a modern computing framework for geodetic image processing of InSAR data from a diverse array of radar satellites and aircraft. ISCE is both a modular, flexible, and extensible framework for building software components and applications as well as a toolbox of applications for processing raw or focused InSAR and Polarimetric InSAR data. The ISCE framework contains object-oriented Python components layered to construct Python InSAR components that manage legacy Fortran/C InSAR programs. Components are independently configurable in a layered manner to provide maximum control. Polymorphism is used to define a workflow in terms of abstract facilities for each processing step that are realized by specific components at run-time. This enables a single workflow to work on either raw or focused data from all sensors. ISCE can serve as the core of a production center to process Level-0 radar data to Level-3 products, but is amenable to interactive processing approaches that allow scientists to experiment with data to explore new ways of doing science with InSAR data. The NASA-ISRO SAR (NISAR) Mission will deliver data of unprecedented quantity and quality, making possible global-scale studies in climate research, natural hazards, and Earth's ecosystems. ISCE is planned as the foundational element in processing NISAR data, enabling a new class of analyses that take greater advantage of the long time and large spatial scales of these new data. NISAR will be but one mission in a constellation of radar satellites in the future delivering such data. ISCE currently supports all publicly available strip map mode space-borne SAR data since ERS and is expected to include support for upcoming missions. ISCE has been incorporated into two prototype cloud-based systems that have demonstrated its elasticity in addressing larger data processing problems in a "production" context and its ability to be

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.

High Resolution SAR Imaging Employing Geometric Features for Extracting Seismic Damage of Buildings

Science.gov (United States)

Cui, L. P.; Wang, X. P.; Dou, A. X.; Ding, X.

2018-04-01

Synthetic Aperture Radar (SAR) image is relatively easy to acquire but difficult for interpretation. This paper probes how to identify seismic damage of building using geometric features of SAR. The SAR imaging geometric features of buildings, such as the high intensity layover, bright line induced by double bounce backscattering and dark shadow is analysed, and show obvious differences texture features of homogeneity, similarity and entropy in combinatorial imaging geometric regions between the un-collapsed and collapsed buildings in airborne SAR images acquired in Yushu city damaged by 2010 Ms7.1 Yushu, Qinghai, China earthquake, which implicates a potential capability to discriminate collapsed and un-collapsed buildings from SAR image. Study also shows that the proportion of highlight (layover & bright line) area (HA) is related to the seismic damage degree, thus a SAR image damage index (SARDI), which related to the ratio of HA to the building occupation are of building in a street block (SA), is proposed. While HA is identified through feature extraction with high-pass and low-pass filtering of SAR image in frequency domain. A partial region with 58 natural street blocks in the Yushu City are selected as study area. Then according to the above method, HA is extracted, SARDI is then calculated and further classified into 3 classes. The results show effective through validation check with seismic damage classes interpreted artificially from post-earthquake airborne high resolution optical image, which shows total classification accuracy 89.3 %, Kappa coefficient 0.79 and identical to the practical seismic damage distribution. The results are also compared and discussed with the building damage identified from SAR image available by other authors.

Feature-Based Nonlocal Polarimetric SAR Filtering

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Xiaoli Xing

2017-10-01

Full Text Available Polarimetric synthetic aperture radar (PolSAR images are inherently contaminated by multiplicative speckle noise, which complicates the image interpretation and image analyses. To reduce the speckle effect, several adaptive speckle filters have been developed based on the weighted average of the similarity measures commonly depending on the model or probability distribution, which are often affected by the distribution parameters and modeling texture components. In this paper, a novel filtering method introduces the coefficient of variance ( CV and Pauli basis (PB to measure the similarity, and the two features are combined with the framework of the nonlocal mean filtering. The CV is used to describe the complexity of various scenes and distinguish the scene heterogeneity; moreover, the Pauli basis is able to express the polarimetric information in PolSAR image processing. This proposed filtering combines the CV and Pauli basis to improve the estimation accuracy of the similarity weights. Then, the similarity of the features is deduced according to the test statistic. Subsequently, the filtering is proceeded by using the nonlocal weighted estimation. The performance of the proposed filter is tested with the simulated images and real PolSAR images, which are acquired by AIRSAR system and ESAR system. The qualitative and quantitative experiments indicate the validity of the proposed method by comparing with the widely-used despeckling methods.

Slope Stability Assessment of the Sarcheshmeh Landslide, Northeast Iran, Investigated Using InSAR and GPS Observations

Directory of Open Access Journals (Sweden)

Mahdi Motagh

2013-07-01

Full Text Available The detection and monitoring of mass movement of susceptible slopes plays a key role in mitigating hazards and potential damage associated with creeping slopes and landslides. In this paper, we use observations from both Interferometric Synthetic Aperture Radar (InSAR and Global Positioning System (GPS to assess the slope stability of the Sarcheshmeh ancient landslide in the North Khorasan province of northeast Iran. InSAR observations were obtained by the time-series analysis of Envisat SAR images covering 2004–2006, whereas repeated GPS observations were conducted by campaign measurements during 2010–2012. Surface displacement maps of the Sarcheshmeh landslide obtained from InSAR and GPS are both indicative of slope stability. Hydrogeological analysis suggests that the multi-year drought and lower than average precipitation levels over the last decade might have contributed to the current dormancy of the Sarcheshmeh landslide.

Rapid Flood Map Generation from Spaceborne SAR Observations

Science.gov (United States)

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

2016-12-01

The Advanced Rapid Imaging and Analysis (ARIA) team has responded to the January 2016 US Midwest Floods along the Mississippi River. Daily teleconferences with FEMA, NOAA, NGA, and USGS, provided information on precipitation and flood crest migration, based on which we coordinated with the Japanese Aerospace Exploration Agency (JAXA) through NASA headquarters for JAXA's ALOS-2 timely tasking over two paths. We produced flood extent maps using ALOS-2 SM3 mode Level 1.5 data that were provided through the International Charter and stored at the US Geological Survey's Hazards Data Distribution System (HDDS) archive. On January 6, the first four frames (70 km x 240 km) were acquired, which included the City of Memphis. We registered post-event SAR images to pre-event images, applied radiometric calibration, took a logarithm of the ratio of the two images. Two thresholds were applied to represent flooded areas that became open water (colored in blue) and flooded areas with tall vegetation (colored in red). The second path was acquired on January 11 further down along the Mississippi River. Seven frames (70 km x 420 km) were acquired and flood maps were created in the similar fashion. The maps were delivered to the FEMA as well as posted on ARIA's public website. The FEMA stated that SAR provides inspection priority for optical imagery and ground response. The ALOS-2 data and the products have been a very important source of information during this response as the flood crest has moved down stream. The SAR data continue to be an important resource during times when optical observations are often not useful. In close collaboration with FEMA and USGS, we also work on other flood events including June 2016 China Floods using European Space Agency's (ESA's) Sentienl-1 data, to produce flood extent maps and identify algorithmic needs and ARIA system's requirements to automate and rapidly produce and deliver flood maps for future events. With the addition of Sentinel-1B

Structural Modeling and Analysis on Dynamic Characteristics of Antenna Pedestal in Airborne SAR

Directory of Open Access Journals (Sweden)

He Li-ping

2012-06-01

Full Text Available Finite element modeling and structural dynamic characteristics of antenna pedestal in airborne SAR were studied in this paper. The Finite element model of antenna pedestal in airborne SAR was set up on the basis of structural dynamic theory, then, the key technologies of dynamic simulation were pointed out, and the modal analysis and transient analysis were carried out. Simulation results show that the dynamic characteristics of antenna pedestal in airborne SAR can meet the requirements of servo bandwidth and structural strength. The fast finite element modeling and simulation method proposed in this paper are of great significance to the weight reducing design of antenna pedestal in airborne SAR.

Urban Aerodynamic Roughness Length Mapping Using Multitemporal SAR Data

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Fengli Zhang

2017-01-01

Full Text Available Aerodynamic roughness is very important to urban meteorological and climate studies. Radar remote sensing is considered to be an effective means for aerodynamic roughness retrieval because radar backscattering is sensitive to the surface roughness and geometric structure of a given target. In this paper, a methodology for aerodynamic roughness length estimation using SAR data in urban areas is introduced. The scale and orientation characteristics of backscattering of various targets in urban areas were firstly extracted and analyzed, which showed great potential of SAR data for urban roughness elements characterization. Then the ground truth aerodynamic roughness was calculated from wind gradient data acquired by the meteorological tower using fitting and iterative method. And then the optimal dimension of the upwind sector for the aerodynamic roughness calculation was determined through a correlation analysis between backscattering extracted from SAR data at various upwind sector areas and the aerodynamic roughness calculated from the meteorological tower data. Finally a quantitative relationship was set up to retrieve the aerodynamic roughness length from SAR data. Experiments based on ALOS PALSAR and COSMO-SkyMed data from 2006 to 2011 prove that the proposed methodology can provide accurate roughness length estimations for the spatial and temporal analysis of urban surface.

Biodiversity impact of host interferon-stimulated-gene-product 15 on the coronavirus Papain-like protease deISGylase functions

Science.gov (United States)

Coronaviruses are single-stranded, positive sense RNA viruses whose members have severe impact on human health and cause significant economic hardships. Some pertinent examples include severe acute and Middle East respiratory syndromes (SARS-CoV; MERS-CoV), porcine epidemic diarrhea virus (PEDV), an...

Classification of sea-ice types in SAR imagery

International Nuclear Information System (INIS)

Baraldi, A.; Parmiggiani, F.

2001-01-01

It is presented a supervised three-stage classification (labeling) scheme applied to SAR images of polar regions for detecting different sea-ice types. The three-stage labeling procedure consists of: 1) a speckle noise filtering stage, based on a sequence of contour detection, segmentation and filtering steps, which removes SAR speckle noise (and texture information as well) without losing spatial details; 2) a second stage providing Bayesian, maximum-α-posteriori, hierarchical (coarse-to-fine), adaptive (data-driven) and contextual labeling of piecewise constant intensity images featuring little useful texture information; and 3) an output stage providing a many-to-one relationship between second stage output categories (types or clusters) and desired output classes. Modules 1) and 2), which demonstrated their validity in several applications in the existing literature, are briefly recalled in the current paper. The proposed labeling scheme features some interesting functional properties when applied to sea-ice SAR images: it is easy to use, i.e., it requires minor user interaction, is robust to changes in input conditions and performs better than a non-contextual (per-pixel) classifier. Application results are presented and discussed for a pair of SAR images extracted, respectively, from an ERS-1 scene acquired on November 1992 over the Bellingshausen Sea (Antarctica) and from an ERS-2 scene of the East Greenland Sea acquired on March 1997 when a field experiment by the research vessel Jan Ma yen was conducted in the same area

Foliar application of systemic acquired resistance (SAR) inducers for ...

African Journals Online (AJOL)

nbuensanteai

2013-08-14

Aug 14, 2013 ... induced by chitosan and BTH were involved in defense mechanism, reflecting the strong direct positive effect that chitosan ... to control plant diseases based on the systemic acquired resistance ... salicylic acid (SA) as a signal molecule and is associated ... treated plants for SAR relating chemical analyses.

How change of public transportation usage reveals fear of the SARS virus in a city.

Science.gov (United States)

Wang, Kuo-Ying

2014-01-01

The outbreaks of the severe acute respiratory syndrome (SARS) epidemic in 2003 resulted in unprecedented impacts on people's daily life. One of the most significant impacts to people is the fear of contacting the SARS virus while engaging daily routine activity. Here we use data from daily underground ridership in Taipei City and daily reported new SARS cases in Taiwan to model the dynamics of the public fear of the SARS virus during the wax and wane of the SARS period. We found that for each reported new SARS case there is an immediate loss of about 1200 underground ridership (the fresh fear). These daily loss rates dissipate to the following days with an e-folding time of about 28 days, reflecting the public perception on the risk of contacting SARS virus when traveling with the underground system (the residual fear). About 50% of daily ridership was lost during the peak of the 2003 SARS period, compared with the loss of 80% daily ridership during the closure of the underground system after Typhoon Nari, the loss of 50-70% ridership due to the closure of the governmental offices and schools during typhoon periods, and the loss of 60% daily ridership during Chinese New Year holidays.

How change of public transportation usage reveals fear of the SARS virus in a city.

Directory of Open Access Journals (Sweden)

Kuo-Ying Wang

Full Text Available The outbreaks of the severe acute respiratory syndrome (SARS epidemic in 2003 resulted in unprecedented impacts on people's daily life. One of the most significant impacts to people is the fear of contacting the SARS virus while engaging daily routine activity. Here we use data from daily underground ridership in Taipei City and daily reported new SARS cases in Taiwan to model the dynamics of the public fear of the SARS virus during the wax and wane of the SARS period. We found that for each reported new SARS case there is an immediate loss of about 1200 underground ridership (the fresh fear. These daily loss rates dissipate to the following days with an e-folding time of about 28 days, reflecting the public perception on the risk of contacting SARS virus when traveling with the underground system (the residual fear. About 50% of daily ridership was lost during the peak of the 2003 SARS period, compared with the loss of 80% daily ridership during the closure of the underground system after Typhoon Nari, the loss of 50-70% ridership due to the closure of the governmental offices and schools during typhoon periods, and the loss of 60% daily ridership during Chinese New Year holidays.

Sequential Ensembles Tolerant to Synthetic Aperture Radar (SAR Soil Moisture Retrieval Errors

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Ju Hyoung Lee

2016-04-01

Full Text Available Due to complicated and undefined systematic errors in satellite observation, data assimilation integrating model states with satellite observations is more complicated than field measurements-based data assimilation at a local scale. In the case of Synthetic Aperture Radar (SAR soil moisture, the systematic errors arising from uncertainties in roughness conditions are significant and unavoidable, but current satellite bias correction methods do not resolve the problems very well. Thus, apart from the bias correction process of satellite observation, it is important to assess the inherent capability of satellite data assimilation in such sub-optimal but more realistic observational error conditions. To this end, time-evolving sequential ensembles of the Ensemble Kalman Filter (EnKF is compared with stationary ensemble of the Ensemble Optimal Interpolation (EnOI scheme that does not evolve the ensembles over time. As the sensitivity analysis demonstrated that the surface roughness is more sensitive to the SAR retrievals than measurement errors, it is a scope of this study to monitor how data assimilation alters the effects of roughness on SAR soil moisture retrievals. In results, two data assimilation schemes all provided intermediate values between SAR overestimation, and model underestimation. However, under the same SAR observational error conditions, the sequential ensembles approached a calibrated model showing the lowest Root Mean Square Error (RMSE, while the stationary ensemble converged towards the SAR observations exhibiting the highest RMSE. As compared to stationary ensembles, sequential ensembles have a better tolerance to SAR retrieval errors. Such inherent nature of EnKF suggests an operational merit as a satellite data assimilation system, due to the limitation of bias correction methods currently available.

Perceived Threat, Risk Perception, and Efficacy Beliefs Related to SARS and Other (Emerging) Infectious Diseases

DEFF Research Database (Denmark)

de Zwart, Onno; Veldhuijzen, Irene; Elam, Gillian

2009-01-01

PURPOSE: To study the levels of perceived threat, perceived severity, perceived vulnerability, response efficacy, and self-efficacy for severe acute respiratory syndrome (SARS) and eight other diseases in five European and three Asian countries. METHOD: A computer-assisted phone survey was conduc......PURPOSE: To study the levels of perceived threat, perceived severity, perceived vulnerability, response efficacy, and self-efficacy for severe acute respiratory syndrome (SARS) and eight other diseases in five European and three Asian countries. METHOD: A computer-assisted phone survey...... was conducted among 3,436 respondents. The questionnaire focused on perceived threat, vulnerability, severity, response efficacy, and self-efficacy related to SARS and eight other diseases. RESULTS: Perceived threat of SARS in case of an outbreak in the country was higher than that of other diseases. Perceived...... vulnerability of SARS was at an intermediate level and perceived severity was high compared to other diseases. Perceived threat for SARS varied between countries in Europe and Asia with a higher perceived severity of SARS in Europe and a higher perceived vulnerability in Asia. Response efficacy and self...

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

Improvement of the Accuracy of InSAR Image Co-Registration Based On Tie Points – A Review

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Xiaoli Ding

2009-02-01

Full Text Available Interferometric Synthetic Aperture Radar (InSAR is a new measurement technology, making use of the phase information contained in the Synthetic Aperture Radar (SAR images. InSAR has been recognized as a potential tool for the generation of digital elevation models (DEMs and the measurement of ground surface deformations. However, many critical factors affect the quality of InSAR data and limit its applications. One of the factors is InSAR data processing, which consists of image co-registration, interferogram generation, phase unwrapping and geocoding. The co-registration of InSAR images is the first step and dramatically influences the accuracy of InSAR products. In this paper, the principle and processing procedures of InSAR techniques are reviewed. One of important factors, tie points, to be considered in the improvement of the accuracy of InSAR image co-registration are emphatically reviewed, such as interval of tie points, extraction of feature points, window size for tie point matching and the measurement for the quality of an interferogram.

Temperature and SAR measurement errors in the evaluation of metallic linear structures heating during MRI using fluoroptic (registered) probes

Energy Technology Data Exchange (ETDEWEB)

Mattei, E [Department of Technologies and Health, Italian National Institute of Health, Rome (Italy); Triventi, M [Department of Technologies and Health, Italian National Institute of Health, Rome (Italy); Calcagnini, G [Department of Technologies and Health, Italian National Institute of Health, Rome (Italy); Censi, F [Department of Technologies and Health, Italian National Institute of Health, Rome (Italy); Kainz, W [Center for Devices and Radiological Health, Food and Drug Administration, Rockville, MD (United States); Bassen, H I [Center for Devices and Radiological Health, Food and Drug Administration, Rockville, MD (United States); Bartolini, P [Department of Technologies and Health, Italian National Institute of Health, Rome (Italy)

2007-03-21

The purpose of this work is to evaluate the error associated with temperature and SAR measurements using fluoroptic (registered) temperature probes on pacemaker (PM) leads during magnetic resonance imaging (MRI). We performed temperature measurements on pacemaker leads, excited with a 25, 64, and 128 MHz current. The PM lead tip heating was measured with a fluoroptic (registered) thermometer (Luxtron, Model 3100, USA). Different contact configurations between the pigmented portion of the temperature probe and the PM lead tip were investigated to find the contact position minimizing the temperature and SAR underestimation. A computer model was used to estimate the error made by fluoroptic (registered) probes in temperature and SAR measurement. The transversal contact of the pigmented portion of the temperature probe and the PM lead tip minimizes the underestimation for temperature and SAR. This contact position also has the lowest temperature and SAR error. For other contact positions, the maximum temperature error can be as high as -45%, whereas the maximum SAR error can be as high as -54%. MRI heating evaluations with temperature probes should use a contact position minimizing the maximum error, need to be accompanied by a thorough uncertainty budget and the temperature and SAR errors should be specified.

SAR Imagery Simulation of Ship Based on Electromagnetic Calculations and Sea Clutter Modelling for Classification Applications

International Nuclear Information System (INIS)

Ji, K F; Zhao, Z; Xing, X W; Zou, H X; Zhou, S L

2014-01-01

Ship detection and classification with space-borne SAR has many potential applications within the maritime surveillance, fishery activity management, monitoring ship traffic, and military security. While ship detection techniques with SAR imagery are well established, ship classification is still an open issue. One of the main reasons may be ascribed to the difficulties on acquiring the required quantities of real data of vessels under different observation and environmental conditions with precise ground truth. Therefore, simulation of SAR images with high scenario flexibility and reasonable computation costs is compulsory for ship classification algorithms development. However, the simulation of SAR imagery of ship over sea surface is challenging. Though great efforts have been devoted to tackle this difficult problem, it is far from being conquered. This paper proposes a novel scheme for SAR imagery simulation of ship over sea surface. The simulation is implemented based on high frequency electromagnetic calculations methods of PO, MEC, PTD and GO. SAR imagery of sea clutter is modelled by the representative K-distribution clutter model. Then, the simulated SAR imagery of ship can be produced by inserting the simulated SAR imagery chips of ship into the SAR imagery of sea clutter. The proposed scheme has been validated with canonical and complex ship targets over a typical sea scene

Calibration of a Land Subsidence Model Using InSAR Data via the Ensemble Kalman Filter.

Science.gov (United States)

Li, Liangping; Zhang, Meijing; Katzenstein, Kurt

2017-11-01

The application of interferometric synthetic aperture radar (InSAR) has been increasingly used to improve capabilities to model land subsidence in hydrogeologic studies. A number of investigations over the last decade show how spatially detailed time-lapse images of ground displacements could be utilized to advance our understanding for better predictions. In this work, we use simulated land subsidences as observed measurements, mimicking InSAR data to inversely infer inelastic specific storage in a stochastic framework. The inelastic specific storage is assumed as a random variable and modeled using a geostatistical method such that the detailed variations in space could be represented and also that the uncertainties of both characterization of specific storage and prediction of land subsidence can be assessed. The ensemble Kalman filter (EnKF), a real-time data assimilation algorithm, is used to inversely calibrate a land subsidence model by matching simulated subsidences with InSAR data. The performance of the EnKF is demonstrated in a synthetic example in which simulated surface deformations using a reference field are assumed as InSAR data for inverse modeling. The results indicate: (1) the EnKF can be used successfully to calibrate a land subsidence model with InSAR data; the estimation of inelastic specific storage is improved, and uncertainty of prediction is reduced, when all the data are accounted for; and (2) if the same ensemble is used to estimate Kalman gain, the analysis errors could cause filter divergence; thus, it is essential to include localization in the EnKF for InSAR data assimilation. © 2017, National Ground Water Association.

Operational SAR-based sea ice drift monitoring over the Baltic Sea

Directory of Open Access Journals (Sweden)

J. Karvonen

2012-07-01

Full Text Available An algorithm for computing ice drift from pairs of synthetic aperture radar (SAR images covering a common area has been developed at FMI. The algorithm has been developed based on the C-band SAR data over the Baltic Sea. It is based on phase correlation in two scales (coarse and fine with some additional constraints. The algorithm has been running operationally in the Baltic Sea from the beginning of 2011, using Radarsat-1 ScanSAR wide mode and Envisat ASAR wide swath mode data. The resulting ice drift fields are publicly available as part of the MyOcean EC project. The SAR-based ice drift vectors have been compared to the drift vectors from drifter buoys in the Baltic Sea during the first operational season, and also these validation results are shown in this paper. Also some navigationally useful sea ice quantities, which can be derived from ice drift vector fields, are presented.

Integrated Data Processing Methodology for Airborne Repeat-pass Differential SAR Interferometry

Science.gov (United States)

Dou, C.; Guo, H.; Han, C.; Yue, X.; Zhao, Y.

2014-11-01

Short temporal baseline and multiple ground deformation information can be derived from the airborne differential synthetic aperture radar Interforemetry (D-InSAR). However, affected by the turbulence of the air, the aircraft would deviate from the designed flight path with high frequent vibrations and changes both in the flight trajectory and attitude. Restricted by the accuracy of the position and orientation system (POS), these high frequent deviations can not be accurately reported, which would pose great challenges in motion compensation and interferometric process. Thus, these challenges constrain its wider applications. The objective of this paper is to investigate the accurate estimation and compensation of the residual motion errors in the airborne SAR imagery and time-varying baseline errors between the diffirent data acquirations, furthermore, to explore the integration data processing theory for the airborne D-InSAR system, and thus help to accomplish the correct derivation of the ground deformation by using the airborne D-InSAR measurements.

Mars Mission Concepts: SAR and Solar Electric Propulsion

Science.gov (United States)

Elsperman, M.; Klaus, K.; Smith, D. B.; Clifford, S. M.; Lawrence, S. J.

2012-12-01

Introduction: The time has come to leverage technology advances (including advances in autonomous operation and propulsion technology) to reduce the cost and increase the flight rate of planetary missions, while actively developing a scientific and engineering workforce to achieve national space objectives. Mission Science at Mars: A SAR imaging radar offers an ability to conduct high resolution investigations of the shallow (Models uniquely useful for exploration planning and science purposes. Since the SAR and the notional high-resolution stereo imaging system would be huge data volume producers - to maximize the science return we are currently considering the usage of laser communications systems; this notional spacecraft represents one pathway to evaluate the utility of laser communications in planetary exploration while providing useful science return.. Mission Concept: Using a common space craft for multiple missions reduces costs. Solar electric propulsion (SEP) provides the flexibility required for multiple mission objectives. SEP provides the greatest payload advantage albeit at the sacrifice of mission time. Our concept involves using a SEP enabled space craft (Boeing 702SP) with a highly capable SAR imager that also conducts autonomous rendezvous and docking experiments accomplished from Mars orbit. Our concept of operations is to launch on May 5, 2018 using a launch vehicle with 2000kg launch capacity with a C3 of 7.4. After reaching Mars it takes 145 days to spiral down to a 250 km orbit above the surface of Mars when Mars SAR operations begin. Summary/Conclusions: A robust and compelling Mars mission can be designed to meet the 2018 Mars launch window opportunity. Using advanced in-space power and propulsion technologies like High Power Solar Electric Propulsion provides enormous mission flexibility to execute the baseline science mission and conduct necessary Mars Sample Return Technology Demonstrations in Mars orbit on the same mission. An

SARS Patients and Their Close Contacts

Science.gov (United States)

... Outreach Workers VIII. Infection Control for Laboratory and Pathology Procedures IX. Occupational Health Issues Appendix I1 Appendix ... SARS was recognized as a global threat in March 2003, after first appearing in Southern China in ...

Ionospheric effects on DInSAR measurements of interseismic deformation in China

Science.gov (United States)

Gong, W.; Shan, X.; Song, X.; Liao, H.; Meyer, F. J.

2017-12-01

Interseismic deformation signals are small ground displacement that is critical to monitor the strain accumulates of major faults to foresee the potential seismic hazard. Accurate measurements of surface deformation could help recognize and interpret even subtle displacement and to give a better understanding of active fault behavior. However, the value and applicability of InSAR for inter-seismic monitoring problems is limited by the influence of temporal decorrelation and electromagnetic path delay variations (atmospheric disturbance), both reducing the sensitivity and accuracy of the technique. Ionospheric signal, a major part of atmospheric disturbance in InSAR, is related to the density of free electrons along the ray path, thus, that is dependent on the SAR signal frequency. Ionosphere induced phase distortions can lead to azimuth/range defocusing, geometry distortions and interferometric phase distortions. Some ionosphere phenomenon have been reported more severe at equatorial region and polar zones, e.g., ionosphere irregularity, while for middle latitude regions like West China it has not been thoroughly analyzed. Thus, this study is focus on the evaluation of ionosphere impacts in middle latitude zone, and its impacts in monitoring interseismic deformation in West China. The outcome would be useful to provide an empiric prior error condition of ionosphere disturbance, which can further benefit InSAR result interpretation and geophysical inversion, as well as the SAR data arrangement in future operational-(cloud) InSAR processing system. The study focus on two parts: 1. We will analyze the temporal-spatial variation of ionosphere and its magnitude at middle latitude zone, and investigate its impacts to current satellite SAR (C-band (Sentinel-1) and L-band (ALOS2) dataset) in earthquake-related deformation studies, especially inter-seismic study. 2. Ionosphere phase patterns at mid latitudes is typically small and the structure is compatibly smooth. This