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                  <text>Dominio científico: Coronavirus</text>
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                <text>Genetic variation in the Staphylococcus aureus 8325 strain lineage revealed by whole-genome sequencing.</text>
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                <text>Kristoffer T. Bæk, Dorte Frees, Adriana Renzoni, Christine Barras, Natalia Rodríguez, Caroline Manzano, William L Kelley</text>
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                <text>Staphylococcus aureus strains of the 8325 lineage, especially 8325-4 and derivatives lacking prophage, have been used extensively for decades of research. We report herein the results of our deep sequence analysis of strain 8325-4. Assignment of sequence variants compared with the reference strain 8325 (NRS77/PS47) required correction of errors in the 8325 reference genome, and reassessment of variation previously attributed to chemical mutagenesis of the restriction-defective RN4220. Using an extensive strain pedigree analysis, we discovered that 8325-4 contains 16 single nucleotide polymorphisms (SNP) arising prior to the construction of RN4220. We identified 5 indels in 8325-4 compared with 8325. Three indels correspond to expected Φ11, 12, 13 excisions, one indel is explained by a sequence assembly artifact, and the final indel (Δ63bp) in the spa-sarS intergenic region is common to only a sub-lineage of 8325-4 strains including SH1000. This deletion was found to significantly decrease (75%) steady state sarS but not spa transcript levels in post-exponential phase. The sub-lineage 8325-4 was also found to harbor 4 additional SNPs. We also found large sequence variation between 8325, 8325-4 and RN4220 in a cluster of repetitive hypothetical proteins (SA0282 homologs) near the Ess secretion cluster. The overall 8325-4 SNP set results in 17 alterations within coding sequences. Remarkably, we discovered that all tested strains of the 8325-4 lineage lack phenol soluble modulin α3 (PSMα3), a virulence determinant implicated in neutrophil chemotaxis, biofilm architecture and surface spreading. Collectively, our results clarify and define the 8325-4 pedigree and reveal clear evidence that mutations existing throughout all branches of this lineage, including the widely used RN6390 and SH1000 strains, could conceivably impact virulence regulation.</text>
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                <text>DOI: 10.1371/journal.pone.0077122</text>
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                <text>PLoS ONE</text>
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                  <text>Dominio científico: Coronavirus</text>
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                <text>Total Antioxidant Capacity in Patients with Chronic Viral Hepatitis</text>
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            <description>An entity primarily responsible for making the resource</description>
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                <text>Özlem KANDEMİR, Gülçin ESKANDARİ, Gülden Ersoz, Ali  KAYA</text>
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                <text>Total antioxidant capacity (TAOC) was investigated in 38 chronic hepatitis patients (25 hepatitis B, 13 hepatitis C). Control group included 22 healthy persons. Results of the colorimetric measurements of TAOC with Randox kit showed that TAOC was significantly lower in patients with chronic hepatitis compared to the controls (p= 0.0013). The findings of this study and those of some related studies, which are limited in number, suggest that antioxidant treatment may contribute to current treatments.</text>
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                <text>2002</text>
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                <text>chronic viral hepatitis, total antioxidant capacity</text>
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                <text>DOI: </text>
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            <description>A related resource from which the described resource is derived</description>
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                <text>Flora Infeksiyon Hastalıkları ve Klinik Mikrobiyoloji Dergisi</text>
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                <text>Bilimsel Tip Yayinevi</text>
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                <text>Infectious and parasitic diseases, Microbiology</text>
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            <description>A language of the resource</description>
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              <name>Title</name>
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                  <text>Coronavirus</text>
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              <description>An account of the resource</description>
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                  <text>Dominio científico: Coronavirus</text>
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                <text>Regulation of coronaviral poly(A) tail length during infection.</text>
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            <description>An entity primarily responsible for making the resource</description>
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                <text>Hung-Yi Wu, Ting-Yung Ke, Wei-Yu Liao, Nai-Yun Chang</text>
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                <text>The positive-strand coronavirus genome of ~30 kilobase in length and subgenomic (sg) mRNAs of shorter lengths, are 5' and 3'-co-terminal by virtue of a common 5'-capped leader and a common 3'-polyadenylated untranslated region. Here, by ligating head-to-tail viral RNAs from bovine coronavirus-infected cells and sequencing across the ligated junctions, it was learned that at the time of peak viral RNA synthesis [6 hours postinfection (hpi)] the 3' poly(A) tail on genomic and sgmRNAs is ~65 nucleotides (nt) in length. Surprisingly, this length was found to vary throughout infection from ~45 nt immediately after virus entry (at 0 to 4 hpi) to ~65 nt later on (at 6 h to 9 hpi) and from ~65 nt (at 6 h to 9 hpi) to ~30 nt (at 120-144 hpi). With the same method, poly(U) sequences of the same lengths were simultaneously found on the ligated viral negative-strand RNAs. Functional analyses of poly(A) tail length on specific viral RNA species, furthermore, revealed that translation, in vivo, of RNAs with the longer poly(A) tail was enhanced over those with the shorter poly(A). Although the mechanisms by which the tail lengths vary is unknown, experimental results together suggest that the length of the poly(A) and poly(U) tails is regulated. One potential function of regulated poly(A) tail length might be that for the coronavirus genome a longer poly(A) favors translation. The regulation of coronavirus translation by poly(A) tail length resembles that during embryonal development suggesting there may be mechanistic parallels.</text>
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                <text>2013</text>
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                <text>DOI: 10.1371/journal.pone.0070548</text>
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                <text>PLoS ONE</text>
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              <name>Title</name>
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                  <text>Coronavirus</text>
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                  <text>Dominio científico: Coronavirus</text>
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            <name>Title</name>
            <description>A name given to the resource</description>
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                <text>History and evolution of surveillance in public health</text>
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            <description>An entity primarily responsible for making the resource</description>
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                <text>Varun Kumar</text>
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            <description>An account of the resource</description>
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                <text>The modern concept of surveillance has evolved over the centuries. Publichealth surveillance provides the scientific database essential for decisionmaking and appropriate public health action. It is considered as the bestpublic health tool to prevent the occurrence of epidemics and is thebackbone of public health programs and provides information so thateffective action can be taken in controlling and preventing diseases of publichealth importance. This article reviews the history of evolution of publichealth surveillance from historical perspective: from Hippocrates, BlackDeath and quarantine, recording of vital events for the first time, first fieldinvestigation, legislations that were developed over time and modernconcepts in public health surveillance. Eradication of small pox is animportant achievement in public health surveillance but the recent SevereAcute Respiratory Syndrome (SARS) and Influenza pandemics suggest still there is a room for improvement. Recently new global disease surveillance networks like FluNet and DengueNet were developed as internet sites for monitoring influenza and dengue information. In spite of these developments, global public health surveillance still remains unevenly distributed. There is a need for increased international cooperation to address the global needs of public health surveillance.</text>
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                <text>2014</text>
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                <text>History, evolution, Surveillance</text>
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            </elementTextContainer>
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                <text>DOI: </text>
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                <text>Global Journal of Medicine and Public Health</text>
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            <description>An entity responsible for making the resource available</description>
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                <text>Makhdoomi Printers</text>
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                <text>Medicine</text>
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                <text>Investigation on structure of oriental beech (Fagus orientalis Lipsky) stand at optimal stage in Sangdeh forest</text>
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                <text>Majied Hassani, Manoochehr Amani</text>
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            <description>An account of the resource</description>
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                <text>In order to study the spatial structure of oriental beech (Fagus orientalis Lipsky) stand at optimal stage, this research was carried out in the Caspian forests of Iran. The studied site consisted of a natural stand located at Sangdeh district (Mers-e-se) with three hectare area. It is located between 1900 and1950 m.a.s.l. Six sample plots each with 0.36 ha area, were systematically selected and all trees (1244 stem) within the plots were measured and recorded. Using increment borer, the mean age of the stand was estimated as 137 years; the age difference of trees was 40 years. Results showed that the stand has a closed canopy cover and distribution of stem number per diameter class was more or less homogenous (Bell shape) with a semi even-aged structure. Using Ripley's K function, the distribution of trees within the stand was random.</text>
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            <description>The topic of the resource</description>
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                <text>Optimal development stage, Horizontal distribution, Oriental Beech, spatial distribution</text>
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            <description>A related resource from which the described resource is derived</description>
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                <text>تحقیقات جنگل و صنوبر ایران</text>
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                <text>Research Institute of Forests and Rangelands of Iran</text>
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              <name>Title</name>
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                  <text>Coronavirus</text>
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              <description>An account of the resource</description>
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                  <text>Dominio científico: Coronavirus</text>
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          <element elementId="50">
            <name>Title</name>
            <description>A name given to the resource</description>
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                <text>Investigation on some qualitative and quantitative characteristics of oriental beech in the optimal phase (Case study: Sangdeh, Caspian forests of Iran)</text>
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          <element elementId="39">
            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
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              <elementText elementTextId="1076">
                <text>Majeid Hassani, Manoochehr Amani</text>
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            <name>Description</name>
            <description>An account of the resource</description>
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                <text>In order to investigate some of the qualitative and quantitative characteristics of oriental beech (Fagus orientalis Lipsky) at optimal phase, this research was carried out in the Caspian forests of Iran in 1999. The study area consisted of a natural stand which was located at Sangdeh District (Mers-e-se) with three hectare area. It was located at 1900-1950 m.a.s.l. Moreover, six sample plots with 0.36 ha area and 25m buffer zone, were selected and all trees (1244 stems) within the plots were measured and recorded. Results showed that the highest frequency of stem number was recorded between diameter classes of 25 to 40 cm. The mean dbh, stem number, basal area, and volume were 35 cm, 562, 53.59 m2ha-1 and 677.9 m3ha-1, respectively. The mean height and dominant height of the stand was 27.1 and 31.3 m, respectively. Moreover, crown canopy was 77%. The mean crown diameter and mean distance between trees was 5 and 4.5m, respectively. On the other hand, the mean slenderness and Reineke coefficient was 79.74 and 1.05, respectively. The results of qualitative characteristics showed that the healthy and non healthy trees of the stand were 48% and 52%, respectively. Moreover, 70% of the trees (402 stems per hectare) were defective or damaged. Thus, 30% of the trees (160 stems per hectare) were faultless, from which the good elite and fine elite trees were 23% and 7%, respectively. The frequency of forked and unforked trees were 28% and 72%, respectively.</text>
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            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
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                <text>2009</text>
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            <name>Subject</name>
            <description>The topic of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="1079">
                <text>Caspian forest, elite trees, forking, optimal phase, Oriental Beech, qualitative &amp; quantitative characteristics</text>
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            <name>Identifier</name>
            <description>An unambiguous reference to the resource within a given context</description>
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              <elementText elementTextId="1080">
                <text>DOI: </text>
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            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
            <elementTextContainer>
              <elementText elementTextId="1081">
                <text>تحقیقات جنگل و صنوبر ایران</text>
              </elementText>
            </elementTextContainer>
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            <name>Publisher</name>
            <description>An entity responsible for making the resource available</description>
            <elementTextContainer>
              <elementText elementTextId="1082">
                <text>Research Institute of Forests and Rangelands of Iran</text>
              </elementText>
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            <name>Coverage</name>
            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
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                <text>Forestry</text>
              </elementText>
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            <name>Language</name>
            <description>A language of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="1084">
                <text>FA</text>
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              <name>Title</name>
              <description>A name given to the resource</description>
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                  <text>Coronavirus</text>
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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>
      <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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        <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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            <description>A name given to the resource</description>
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                <text>Recognition of HIV-1 peptides by host CTL is related to HIV-1 similarity to human proteins.</text>
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            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
            <elementTextContainer>
              <elementText elementTextId="1086">
                <text>Morgane Rolland, David C. Nickle, Wenjie Deng, Nicole Frahm, Christian Brander, Gerald H. Learn, David Heckerman, Nebosja Jojic, Vladimir Jojic, Bruce D. Walker, James I. Mullins</text>
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          <element elementId="41">
            <name>Description</name>
            <description>An account of the resource</description>
            <elementTextContainer>
              <elementText elementTextId="1087">
                <text>While human immunodeficiency virus type 1 (HIV-1)-specific cytotoxic T lymphocytes preferentially target specific regions of the viral proteome, HIV-1 features that contribute to immune recognition are not well understood. One hypothesis is that similarities between HIV and human proteins influence the host immune response, i.e., resemblance between viral and host peptides could preclude reactivity against certain HIV epitopes.We analyzed the extent of similarity between HIV-1 and the human proteome. Proteins from the HIV-1 B consensus sequence from 2001 were dissected into overlapping k-mers, which were then probed against a non-redundant database of the human proteome in order to identify segments of high similarity. We tested the relationship between HIV-1 similarity to host encoded peptides and immune recognition in HIV-infected individuals, and found that HIV immunogenicity could be partially modulated by the sequence similarity to the host proteome. ELISpot responses to peptides spanning the entire viral proteome evaluated in 314 individuals showed a trend indicating an inverse relationship between the similarity to the host proteome and the frequency of recognition. In addition, analysis of responses by a group of 30 HIV-infected individuals against 944 overlapping peptides representing a broad range of individual HIV-1B Nef variants, affirmed that the degree of similarity to the host was significantly lower for peptides with reactive epitopes than for those that were not recognized.Our results suggest that antigenic motifs that are scarcely represented in human proteins might represent more immunogenic CTL targets not selected against in the host. This observation could provide guidance in the design of more effective HIV immunogens, as sequences devoid of host-like features might afford superior immune reactivity.</text>
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            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
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                <text>2007</text>
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            <name>Identifier</name>
            <description>An unambiguous reference to the resource within a given context</description>
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              <elementText elementTextId="1089">
                <text>DOI: 10.1371/journal.pone.0000823</text>
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            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
            <elementTextContainer>
              <elementText elementTextId="1090">
                <text>PLoS ONE</text>
              </elementText>
            </elementTextContainer>
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            <name>Publisher</name>
            <description>An entity responsible for making the resource available</description>
            <elementTextContainer>
              <elementText elementTextId="1091">
                <text>Public Library of Science (PLoS)</text>
              </elementText>
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            <name>Coverage</name>
            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
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                <text>Science, Medicine</text>
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            <description>A language of the resource</description>
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              <name>Title</name>
              <description>A name given to the resource</description>
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                  <text>Coronavirus</text>
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              <description>An account of the resource</description>
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                <elementText elementTextId="2">
                  <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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      <elementSet elementSetId="1">
        <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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            <name>Title</name>
            <description>A name given to the resource</description>
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                <text>Depletion of alveolar macrophages ameliorates virus-induced disease following a pulmonary coronavirus infection.</text>
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            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
            <elementTextContainer>
              <elementText elementTextId="1095">
                <text>Stacey M. Hartwig, Kaitlyn M Holman, Steven M. Varga</text>
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            <description>An account of the resource</description>
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                <text>Coronaviruses cause respiratory disease in humans that can range from mild to severe. However, the pathogenesis of pulmonary coronavirus infections is poorly understood. Mouse hepatitis virus type 1 (MHV-1) is a group 2 coronavirus capable of causing severe morbidity and mortality in highly susceptible C3H/HeJ mice. We have previously shown that both CD4 and CD8 T cells play a critical role in mediating MHV-1-induced disease. Here we evaluated the role of alveolar macrophages (AM) in modulating the adaptive immune response and subsequent disease. Depletion of AM using clodronate liposomes administered prior to MHV-1 infection was associated with a significant amelioration of MHV-1-induced morbidity and mortality. AM depletion resulted in a decreased number of virus-specific CD4 T cells in the lung airways. In addition, a significant increase in the frequency and total number of Tregs in the lung tissue and lung airways was observed following MHV-1 infection in mice depleted of AM. Our results indicate that AM play a critical role in modulating MHV-1-induced morbidity and mortality.</text>
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            <description>A point or period of time associated with an event in the lifecycle of the resource</description>
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                <text>2014</text>
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            <name>Identifier</name>
            <description>An unambiguous reference to the resource within a given context</description>
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                <text>DOI: 10.1371/journal.pone.0090720</text>
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            <name>Source</name>
            <description>A related resource from which the described resource is derived</description>
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              <elementText elementTextId="1099">
                <text>PLoS ONE</text>
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                <text>Public Library of Science (PLoS)</text>
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            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
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                <text>Science, Medicine</text>
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            <description>A language of the resource</description>
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              <name>Title</name>
              <description>A name given to the resource</description>
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                  <text>Coronavirus</text>
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              <name>Description</name>
              <description>An account of the resource</description>
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                <elementText elementTextId="2">
                  <text>Dominio científico: Coronavirus</text>
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    <itemType itemTypeId="1">
      <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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      <elementSet elementSetId="1">
        <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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            <description>A name given to the resource</description>
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                <text>Urgent Call for Research on Middle East Respiratory Syndrome (MERS) in Korea</text>
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            <name>Creator</name>
            <description>An entity primarily responsible for making the resource</description>
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                <text>Sung-il Cho</text>
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                <text>2015</text>
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                <text>DOI: 10.3961/jpmph.15.047</text>
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            <description>A related resource from which the described resource is derived</description>
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              <elementText elementTextId="1107">
                <text>Journal of Preventive Medicine and Public Health</text>
              </elementText>
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            <name>Publisher</name>
            <description>An entity responsible for making the resource available</description>
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                <text>Korean Society for Preventive Medicine</text>
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            <name>Coverage</name>
            <description>The spatial or temporal topic of the resource, the spatial applicability of the resource, or the jurisdiction under which the resource is relevant</description>
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                <text>Public aspects of medicine, Medicine</text>
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                <text>EN</text>
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        <src>https://www.socictopen.socict.org/files/original/eb5037fa428b797c7dc1367cef909011.pdf</src>
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            <element elementId="50">
              <name>Title</name>
              <description>A name given to the resource</description>
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                  <text>Coronavirus</text>
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                  <text>Dominio científico: Coronavirus</text>
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                <text>Lack of innate interferon responses during SARS coronavirus infection in a vaccination and reinfection ferret model.</text>
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                <text>Mark J Cameron, Alyson A Kelvin, Alberto J. León, Cheryl M Cameron, Longsi Ran, Luoling Xu, Yong-Kyu Chu, Ali Danesh, Yuan Fang, Qianjun Li, Austin Anderson, Ronald C Couch, Stéphane G Paquette, Ndingsa G Fomukong, Otfried Kistner, Manfred Lauchart, Thomas Rowe, Kevin S. Harrod, Colleen B. Jonsson, David J Kelvin</text>
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                <text>In terms of its highly pathogenic nature, there remains a significant need to further define the immune pathology of SARS-coronavirus (SARS-CoV) infection, as well as identify correlates of immunity to help develop vaccines for severe coronaviral infections. Here we use a SARS-CoV infection-reinfection ferret model and a functional genomics approach to gain insight into SARS immunopathogenesis and to identify correlates of immune protection during SARS-CoV-challenge in ferrets previously infected with SARS-CoV or immunized with a SARS virus vaccine. We identified gene expression signatures in the lungs of ferrets associated with primary immune responses to SARS-CoV infection and in ferrets that received an identical second inoculum. Acute SARS-CoV infection prompted coordinated innate immune responses that were dominated by antiviral IFN response gene (IRG) expression. Reinfected ferrets, however, lacked the integrated expression of IRGs that was prevalent during acute infection. The expression of specific IRGs was also absent upon challenge in ferrets immunized with an inactivated, Al(OH)(3)-adjuvanted whole virus SARS vaccine candidate that protected them against SARS-CoV infection in the lungs. Lack of IFN-mediated immune enhancement in infected ferrets that were previously inoculated with, or vaccinated against, SARS-CoV revealed 9 IRG correlates of protective immunity. This data provides insight into the molecular pathogenesis of SARS-CoV and SARS-like-CoV infections and is an important resource for the development of CoV antiviral therapeutics and vaccines.</text>
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                <text>2012</text>
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                <text>DOI: 10.1371/journal.pone.0045842</text>
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                <text>PLoS ONE</text>
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            <name>Publisher</name>
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                <text>Public Library of Science (PLoS)</text>
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            <name>Coverage</name>
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                <text>Science, Medicine</text>
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            <name>Language</name>
            <description>A language of the resource</description>
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                <text>EN</text>
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