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                  <text>Dominio científico: Coronavirus</text>
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                <text>Diminished COX-2/PGE2-Mediated Antiviral Response Due to Impaired NOX/MAPK Signaling in G6PD-Knockdown Lung Epithelial Cells.</text>
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                <text>Hsin-Ru Lin, Yi-Hsuan Wu, Wei-Chen Yen, Chuen-Mao Yang, Daniel  Tsun-Yee Chiu</text>
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                <text>Glucose-6-phosphate dehydrogenase (G6PD) provides the reducing agent NADPH to meet the cellular needs for reductive biosynthesis and the maintenance of redox homeostasis. G6PD-deficient cells experience a high level of oxidative stress and an increased susceptibility to viral infections. Cyclooxygenase-2 (COX-2) is a key mediator in the regulation of viral replication and inflammatory response. In the current study, the role of G6PD on the inflammatory response was determined in both scramble control and G6PD-knockdown (G6PD-kd) A549 cells upon tumor necrosis factor-α (TNF-α) stimulation. A decreased expression pattern of induced COX-2 and reduced production of downstream PGE2 occurred upon TNF-α stimulation in G6PD-kd A549 cells compared with scramble control A549 cells. TNF-α-induced antiviral activity revealed that decreased COX-2 expression enhanced the susceptibility to coronavirus 229E infection in G6PD-kd A549 cells and was a result of the decreased phosphorylation levels of MAPK (p38 and ERK1/2) and NF-κB. The impaired inflammatory response in G6PD-kd A549 cells was found to be mediated through NADPH oxidase (NOX) signaling as elucidated by cell pretreatment with a NOX2-siRNA or NOX inhibitor, diphenyleneiodonium chloride (DPI). In addition, NOX activity with TNF-α treatment in G6PD-kd A549 cells was not up-regulated and was coupled with a decrease in NOX subunit expression at the transcriptional level, implying that TNF-α-mediated NOX signaling requires the participation of G6PD. Together, these data suggest that G6PD deficiency affects the cellular inflammatory response and the decreased TNF-α-mediated antiviral response in G6PD-kd A549 cells is a result of dysregulated NOX/MAPK/NF-κB/COX-2 signaling.</text>
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                <text>DOI: 10.1371/journal.pone.0153462</text>
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                <text>PLoS ONE</text>
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              <name>Title</name>
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              <name>Description</name>
              <description>An account of the resource</description>
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                  <text>Dominio científico: Coronavirus</text>
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      <name>Text</name>
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                <text>Viral etiology of acute respiratory infections in hospitalized children in Novosibirsk City, Russia (2013 - 2017).</text>
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                <text>Olga Kurskaya, Tatyana Ryabichenko, Natalya Leonova, Weifeng Shi, Hongtao Bi, Kirill Sharshov, Eugenia Kazachkova, Ivan Sobolev, Elena Prokopyeva, Tatiana Kartseva, Alexander Alekseev, Alexander Shestopalov</text>
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                <text>BACKGROUND:Acute respiratory infections (ARIs) cause a considerable morbidity and mortality worldwide especially in children. However, there are few studies of the etiological structure of ARIs in Russia. In this work, we analyzed the etiology of ARIs in children (0-15 years old) admitted to Novosibirsk Children's Municipal Clinical Hospital in 2013-2017. METHODS:We tested nasal and throat swabs of 1560 children with upper or lower respiratory infection for main respiratory viruses (influenza viruses A and B, parainfluenza virus types 1-4, respiratory syncytial virus, metapneumovirus, four human coronaviruses, rhinovirus, adenovirus and bocavirus) using a RT-PCR Kit. RESULTS:We detected 1128 (72.3%) samples were positive for at least one virus. The most frequently detected pathogens were respiratory syncytial virus (358/1560, 23.0%), influenza virus (344/1560, 22.1%), and rhinovirus (235/1560, 15.1%). Viral co-infections were found in 163 out of the 1128 (14.5%) positive samples. We detected significant decrease of the respiratory syncytial virus-infection incidence in children with increasing age, while the reverse relationship was observed for influenza viruses. CONCLUSIONS:We evaluated the distribution of respiratory viruses in children with ARIs and showed the prevalence of respiratory syncytial virus and influenza virus in the etiological structure of infections. This study is important for the improvement and optimization of diagnostic tactics, control and prevention of the respiratory viral infections.</text>
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                <text>DOI: 10.1371/journal.pone.0200117</text>
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                <text>PLoS ONE</text>
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              <name>Title</name>
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              <description>An account of the resource</description>
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                  <text>Dominio científico: Coronavirus</text>
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      <name>Text</name>
      <description>A resource consisting primarily of words for reading. Examples include books, letters, dissertations, poems, newspapers, articles, archives of mailing lists. Note that facsimiles or images of texts are still of the genre Text.</description>
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        <name>Dublin Core</name>
        <description>The Dublin Core metadata element set is common to all Omeka records, including items, files, and collections. For more information see, http://dublincore.org/documents/dces/.</description>
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                <text>Environmental persistence of porcine coronaviruses in feed and feed ingredients.</text>
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                <text>Michaela P Trudeau, Harsha Verma, Fernando Sampedro, Pedro E Urriola, Gerald C Shurson, Sagar M. Goyal</text>
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                <text>Porcine Epidemic Diarrhea Virus (PEDV), Porcine Delta Corona Virus (PDCoV), and Transmissible Gastroenteritis Virus (TGEV) are major threats to swine health and contaminated feed plays a role in virus transmission. The objective of our study was to characterize inactivation of PEDV, PDCoV, and TGEV in various feed ingredient matrices. Samples of complete feed, spray dried porcine plasma, meat meal, meat and bone meal, blood meal, corn, soybean meal, and corn dried distillers grains with solubles were weighed (5 g/sample) into scintillation vials and inoculated with 1 mL of PEDV, PDCoV, or TGEV. Samples were incubated at room temperature for up to 56 days. Aliquots were removed at various time points followed by preparing serial 10-fold dilutions and inoculating in cell cultures to determine the amount of surviving virus. Inactivation kinetics were determined using the Weibull model, which estimates a delta value indicating the time necessary to reduce virus concentration by 1 log. Delta values of various ingredients were compared and analyzed as to their nutrient composition. Soybean meal had the greatest delta value (7.50 days) for PEDV (P &lt; 0.06) as compared with all other ingredients. High delta values (P &lt; 0.001) were observed in soybean meal for PDCoV (42.04 days) and TGEV (42.00 days). There was a moderate correlation between moisture content and the delta value for PDCoV (r = 0.49, P = 0.01) and TGEV (r = 0.41, P = 0.02). There was also a moderate negative correlation between TGEV survival and ether extract content (r = -0.51, P = 0.01). In conclusion, these results indicate that the first log reduction of PDCoV and TGEV takes the greatest amount of time in soybean meal. In addition to this, moisture and ether content appear to be an important determinant of virus survival in feed ingredients.</text>
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                <text>DOI: 10.1371/journal.pone.0178094</text>
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                <text>PLoS ONE</text>
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                  <text>Dominio científico: Coronavirus</text>
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                <text>Full-length genome sequences of porcine epidemic diarrhoea virus strain CV777; Use of NGS to analyse genomic and sub-genomic RNAs.</text>
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              <elementText elementTextId="873">
                <text>Thomas Bruun Rasmussen, Maria Beatrice Boniotti, Alice Papetti, Béatrice Grasland, Jean-Pierre Frossard, Akbar Dastjerdi, Marcel Hulst, Dennis Hanke, Anne Pohlmann, Sandra Blome, Wim H.M. van der Poel, Falko Steinbach, Yannick Blanchard, Antonio Lavazza, Anette Bøtner, Graham J Belsham</text>
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                <text>Porcine epidemic diarrhoea virus, strain CV777, was initially characterized in 1978 as the causative agent of a disease first identified in the UK in 1971. This coronavirus has been widely distributed among laboratories and has been passaged both within pigs and in cell culture. To determine the variability between different stocks of the PEDV strain CV777, sequencing of the full-length genome (ca. 28kb) has been performed in 6 different laboratories, using different protocols. Not surprisingly, each of the different full genome sequences were distinct from each other and from the reference sequence (Accession number AF353511) but they are &gt;99% identical. Unique and shared differences between sequences were identified. The coding region for the surface-exposed spike protein showed the highest proportion of variability including both point mutations and small deletions. The predicted expression of the ORF3 gene product was more dramatically affected in three different variants of this virus through either loss of the initiation codon or gain of a premature termination codon. The genome of one isolate had a substantially rearranged 5´-terminal sequence. This rearrangement was validated through the analysis of sub-genomic mRNAs from infected cells. It is clearly important to know the features of the specific sample of CV777 being used for experimental studies.</text>
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                <text>DOI: 10.1371/journal.pone.0193682</text>
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                <text>PLoS ONE</text>
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                <text>Saket Chandra, Dharmendra Singh, Jyoti Pathak, Supriya Kumari, Manish Kumar, Raju Poddar, Harindra Singh Balyan, Puspendra Kumar Gupta, Kumble Vinod Prabhu, Kunal Mukhopadhyay</text>
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                <text>Pathogens like Puccinia triticina, the causal organism for leaf rust, extensively damages wheat production. The interaction at molecular level between wheat and the pathogen is complex and less explored. The pathogen induced response was characterized using mock- or pathogen inoculated near-isogenic wheat lines (with or without seedling leaf rust resistance gene Lr28). Four Serial Analysis of Gene Expression libraries were prepared from mock- and pathogen inoculated plants and were subjected to Sequencing by Oligonucleotide Ligation and Detection, which generated a total of 165,767,777 reads, each 35 bases long. The reads were processed and multiple k-mers were attempted for de novo transcript assembly; 22 k-mers showed the best results. Altogether 21,345 contigs were generated and functionally characterized by gene ontology annotation, mining for transcription factors and resistance genes. Expression analysis among the four libraries showed extensive alterations in the transcriptome in response to pathogen infection, reflecting reorganizations in major biological processes and metabolic pathways. Role of auxin in determining pathogenesis in susceptible and resistant lines were imperative. The qPCR expression study of four LRR-RLK (Leucine-rich repeat receptor-like protein kinases) genes showed higher expression at 24 hrs after inoculation with pathogen. In summary, the conceptual model of induced resistance in wheat contributes insights on defense responses and imparts knowledge of Puccinia triticina-induced defense transcripts in wheat plants.</text>
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                <text>DOI: 10.1371/journal.pone.0148453</text>
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                <text>PLoS ONE</text>
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                <text>Thermocyclops oblongatus (Sars) (Crustacea: Copepoda): A New Cyclopid for the Fauna of India, and Zoogeography of the Species</text>
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                <text>Giuseppe Lucio Pesce and Raffaella Pace</text>
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                <text>Thermocyclops oblongatus (Sars) (Crustacea: Copepoda): A New Cyclopid for the Fauna of India, and Zoogeography of the Species</text>
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                <text>Proceedings of Indian National Science Academy</text>
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                <text>Indian National Science Academy</text>
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                  <text>Dominio científico: Coronavirus</text>
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                <text>Cyclomorphosis in Daphnia lumholtzi Sars (Crustacea: Cladocera)  -An Intermittent Species from a Subtropical Water body</text>
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                <text>M P Sharma and A K Dasgupta</text>
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            <description>An account of the resource</description>
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                <text>Cyclomorphosis in Daphnia lumholtzi Sars (Crustacea: Cladocera)  -An Intermittent Species from a Subtropical Water body</text>
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                <text>Proceedings of Indian National Science Academy</text>
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                <text>Indian National Science Academy</text>
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                <text>Genetic characterization of the hemagglutinin genes of wild-type measles virus circulating in china, 1993-2009.</text>
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                <text>Song-Tao Xu, Yan Zhang, Zhen Zhu, Chunyu Liu, Naiying Mao, Yixin Ji, Hui-Ling Wang, Xiao Hong Jiang, Chongshan Li, Wei Tang, Daxing Feng, Changyin Wang, Lei Zheng, Yu eLei, Hua Ling, Chunfang Zhao, Yan MA, Jilan He, Yan Wang, Ping Li, Ronghui Guan, Shujie Zhou, Jian-Hui Zhou, Shuang Wang, Hong Zhang, Huanying Zheng, Leng Liu, Hemuti Ma, Jing Guan, Peishan Lu, Yan Feng, Yanjun Zhang, Shunde Zhou, Ying Xiong, Zhuoma Ba, Hui Chen, Xiuhui Yang, Fang Bo, Yujie Ma, Yong Liang, Yake Lei, Suyi Gu, Wei Liu, Meng Chen, David Featherstone, Youngmee Jee, William J. Bellini, Paul A. Rota, Wenbo Xu</text>
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                <text>BACKGROUND: China experienced several large measles outbreaks in the past two decades, and a series of enhanced control measures were implemented to achieve the goal of measles elimination. Molecular epidemiologic surveillance of wild-type measles viruses (MeV) provides valuable information about the viral transmission patterns. Since 1993, virologic surveillnace has confirmed that a single endemic genotype H1 viruses have been predominantly circulating in China. A component of molecular surveillance is to monitor the genetic characteristics of the hemagglutinin (H) gene of MeV, the major target for virus neutralizing antibodies. PRINCIPAL FINDINGS: Analysis of the sequences of the complete H gene from 56 representative wild-type MeV strains circulating in China during 1993-2009 showed that the H gene sequences were clustered into 2 groups, cluster 1 and cluster 2. Cluster1 strains were the most frequently detected cluster and had a widespread distribution in China after 2000. The predicted amino acid sequences of the H protein were relatively conserved at most of the functionally significant amino acid positions. However, most of the genotype H1 cluster1 viruses had an amino acid substitution (Ser240Asn), which removed a predicted N-linked glycosylation site. In addition, the substitution of Pro397Leu in the hemagglutinin noose epitope (HNE) was identified in 23 of 56 strains. The evolutionary rate of the H gene of the genotype H1 viruses was estimated to be approximately 0.76×10(-3) substitutions per site per year, and the ratio of dN to dS (dN/dS) was</text>
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                <text>DOI: 10.1371/journal.pone.0073374</text>
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                <text>PLoS ONE</text>
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                <text>Evaluation of phage display discovered peptides as ligands for prostate-specific membrane antigen (PSMA).</text>
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                <text>Duanwen Shen, Fei Xie, W Barry Edwards</text>
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                <text>The aim of this study was to identify potential ligands of PSMA suitable for further development as novel PSMA-targeted peptides using phage display technology. The human PSMA protein was immobilized as a target followed by incubation with a 15-mer phage display random peptide library. After one round of prescreening and two rounds of screening, high-stringency screening at the third round of panning was performed to identify the highest affinity binders. Phages which had a specific binding activity to PSMA in human prostate cancer cells were isolated and the DNA corresponding to the 15-mers were sequenced to provide three consensus sequences: GDHSPFT, SHFSVGS and EVPRLSLLAVFL as well as other sequences that did not display consensus. Two of the peptide sequences deduced from DNA sequencing of binding phages, SHSFSVGSGDHSPFT and GRFLTGGTGRLLRIS were labeled with 5-carboxyfluorescein and shown to bind and co-internalize with PSMA on human prostate cancer cells by fluorescence microscopy. The high stringency requirements yielded peptides with affinities KD~1 µM or greater which are suitable starting points for affinity maturation. While these values were less than anticipated, the high stringency did yield peptide sequences that apparently bound to different surfaces on PSMA. These peptide sequences could be the basis for further development of peptides for prostate cancer tumor imaging and therapy.</text>
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                <text>DOI: 10.1371/journal.pone.0068339</text>
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                <text>Markus Hoffmann, Marcel Alexander Müller, Jan Felix Drexler, Jörg Glende, Meike Erdt, Tim Gützkow, Christoph Losemann, Tabea Binger, Hongkui Deng, Christel Schwegmann-Weßels, Karl-Heinz Esser, Christian Drosten, Georg Herrler</text>
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                <text>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.</text>
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                <text>DOI: 10.1371/journal.pone.0072942</text>
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                <text>PLoS ONE</text>
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