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<art>
   <ui>1465-9921-8-34</ui>
   <ji>RRJ</ji>
   <fm>
      <dochead>Research</dochead>
      <bibl>
         <title>
            <p>Genomic analysis of human lung fibroblasts exposed to vanadium pentoxide to identify candidate genes for occupational bronchitis</p>
         </title>
         <aug>
            <au id="A1">
               <snm>Ingram</snm>
               <mi>L</mi>
               <fnm>Jennifer</fnm>
               <insr iid="I1"/>
               <email>jennifer.ingram@duke.edu</email>
            </au>
            <au id="A2">
               <snm>Antao-Menezes</snm>
               <fnm>Aurita</fnm>
               <insr iid="I1"/>
               <email>amenezes@ciit.org</email>
            </au>
            <au id="A3">
               <snm>Turpin</snm>
               <mi>A</mi>
               <fnm>Elizabeth</fnm>
               <insr iid="I1"/>
               <email>eturpin@embrex.com</email>
            </au>
            <au id="A4">
               <snm>Wallace</snm>
               <mi>G</mi>
               <fnm>Duncan</fnm>
               <insr iid="I1"/>
               <email>wallace@ciit.org</email>
            </au>
            <au id="A5">
               <snm>Mangum</snm>
               <mi>B</mi>
               <fnm>James</fnm>
               <insr iid="I1"/>
               <email>james.b.mangum@gsk.com</email>
            </au>
            <au id="A6">
               <snm>Pluta</snm>
               <mi>J</mi>
               <fnm>Linda</fnm>
               <insr iid="I1"/>
               <email>lpluta@ciit.org</email>
            </au>
            <au id="A7">
               <snm>Thomas</snm>
               <mi>S</mi>
               <fnm>Russell</fnm>
               <insr iid="I1"/>
               <email>rthomas@ciit.org</email>
            </au>
            <au id="A8" ca="yes">
               <snm>Bonner</snm>
               <mi>C</mi>
               <fnm>James</fnm>
               <insr iid="I1"/>
               <email>jbonner@ciit.org</email>
            </au>
         </aug>
         <insg>
            <ins id="I1">
               <p>The Hamner Institutes for Health Sciences, Research Triangle Park, North Carolina 27709, USA</p>
            </ins>
         </insg>
         <source>Respiratory Research</source>
         <issn>1465-9921</issn>
         <pubdate>2007</pubdate>
         <volume>8</volume>
         <issue>1</issue>
         <fpage>34</fpage>
         <url>http://respiratory-research.com/content/8/1/34</url>
         <xrefbib>
            <pubidlist>
               <pubid idtype="pmpid">17459161</pubid>
               <pubid idtype="doi">10.1186/1465-9921-8-34</pubid>
            </pubidlist>
         </xrefbib>
      </bibl>
      <history>
         <rec>
            <date>
               <day>05</day>
               <month>12</month>
               <year>2006</year>
            </date>
         </rec>
         <acc>
            <date>
               <day>25</day>
               <month>4</month>
               <year>2007</year>
            </date>
         </acc>
         <pub>
            <date>
               <day>25</day>
               <month>4</month>
               <year>2007</year>
            </date>
         </pub>
      </history>
      <cpyrt>
         <year>2007</year>
         <collab>Ingram et al; licensee BioMed Central Ltd.</collab>
         <note>This is an Open Access article distributed under the terms of the Creative Commons Attribution License (<url>http://creativecommons.org/licenses/by/2.0</url>), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.</note>
      </cpyrt>
      <abs>
         <sec>
            <st>
               <p>Abstract</p>
            </st>
            <sec>
               <st>
                  <p>Background</p>
               </st>
               <p>Exposure to vanadium pentoxide (V<sub>2</sub>O<sub>5</sub>) is a cause of occupational bronchitis. We evaluated gene expression profiles in cultured human lung fibroblasts exposed to V<sub>2</sub>O<sub>5 </sub><it>in vitro </it>in order to identify candidate genes that could play a role in inflammation, fibrosis, and repair during the pathogenesis of V<sub>2</sub>O<sub>5</sub>-induced bronchitis.</p>
            </sec>
            <sec>
               <st>
                  <p>Methods</p>
               </st>
               <p>Normal human lung fibroblasts were exposed to V<sub>2</sub>O<sub>5 </sub>in a time course experiment. Gene expression was measured at various time points over a 24 hr period using the Affymetrix Human Genome U133A 2.0 Array. Selected genes that were significantly changed in the microarray experiment were validated by RT-PCR.</p>
            </sec>
            <sec>
               <st>
                  <p>Results</p>
               </st>
               <p>V<sub>2</sub>O<sub>5 </sub>altered more than 1,400 genes, of which ~300 were induced while >1,100 genes were suppressed. Gene ontology categories (GO) categories unique to induced genes included <it>inflammatory response </it>and <it>immune response</it>, while GO catogories unique to suppressed genes included <it>ubiquitin cycle </it>and <it>cell cycle</it>. A dozen genes were validated by RT-PCR, including growth factors (<it>HBEGF</it>, <it>VEGF</it>, <it>CTGF</it>), chemokines (<it>IL8</it>, <it>CXCL9</it>, <it>CXCL10</it>), oxidative stress response genes (<it>SOD2</it>, <it>PIPOX</it>, <it>OXR1</it>), and DNA-binding proteins (<it>GAS1</it>, <it>STAT1</it>).</p>
            </sec>
            <sec>
               <st>
                  <p>Conclusion</p>
               </st>
               <p>Our study identified a variety of genes that could play pivotal roles in inflammation, fibrosis and repair during V<sub>2</sub>O<sub>5</sub>-induced bronchitis. The induction of genes that mediate inflammation and immune responses, as well as suppression of genes involved in growth arrest appear to be important to the lung fibrotic reaction to V<sub>2</sub>O<sub>5</sub>.</p>
            </sec>
         </sec>
      </abs>
   </fm>
   <bdy>
      <sec>
         <st>
            <p>Background</p>
         </st>
         <p>Occupational exposure to vanadium pentoxide (V<sub>2</sub>O<sub>5</sub>) has been associated with an increased incidence of chronic obstructive airway disease and a reduction in lung function <abbrgrp><abbr bid="B1">1</abbr></abbrgrp>. V<sub>2</sub>O<sub>5 </sub>is the most common commercial form of vanadium and is the primary form found in industrial exposure situations <abbrgrp><abbr bid="B2">2</abbr></abbrgrp>. Occupational exposure to V<sub>2</sub>O<sub>5 </sub>occurs during the cleaning of oil-fired boilers and furnaces, during handling of catalysts in chemical plants, and during the refining, processing, and burning of vanadium-rich fossil fuels <abbrgrp><abbr bid="B3">3</abbr></abbrgrp>.</p>
         <p>We previously reported that V<sub>2</sub>O<sub>5 </sub>causes airway disease in rats that is similar to the pathology of asthma and bronchitis in humans <abbrgrp><abbr bid="B4">4</abbr></abbrgrp>. These pathologic changes include mucous cell hyperplasia, increased airway smooth muscle mass, and peribronchiolar fibrosis. Lung fibroblasts are thought to play a major role in V<sub>2</sub>O<sub>5</sub>-induced airway remodeling <it>in vivo</it>, as these cells proliferate around airways following injury and deposit collagen which defines the airway fibrotic lesion <abbrgrp><abbr bid="B4">4</abbr><abbr bid="B5">5</abbr></abbrgrp>.</p>
         <p>Vanadium compounds exert cellular stress via inhibition of protein tyrosine phosphatases (PTPs) in cells <abbrgrp><abbr bid="B6">6</abbr></abbrgrp> and through the generation of reactive oxygen species <abbrgrp><abbr bid="B7">7</abbr><abbr bid="B8">8</abbr></abbrgrp>. In particular, vanadium compounds have been shown to stimulate release of H<sub>2</sub>O<sub>2 </sub>in several pulmonary cell types, including alveolar macrophages <abbrgrp><abbr bid="B9">9</abbr></abbrgrp>, human lung epithelial cells <abbrgrp><abbr bid="B10">10</abbr></abbrgrp>, and human lung fibroblasts <abbrgrp><abbr bid="B11">11</abbr></abbrgrp>. Vanadium-induced oxidative stress has been reported to increase the phosphorylation of MAP kinases through the epidermal growth factor receptor (EGFR) <abbrgrp><abbr bid="B12">12</abbr></abbrgrp> and stimulate activation of multiple transcription factors including p53 <abbrgrp><abbr bid="B13">13</abbr></abbrgrp>, AP-1 <abbrgrp><abbr bid="B14">14</abbr></abbrgrp>, NF-&#954;B <abbrgrp><abbr bid="B15">15</abbr></abbrgrp> and STAT-1 <abbrgrp><abbr bid="B8">8</abbr></abbrgrp>. These transcription factors play major roles in cell proliferation, apoptosis, differentiation, and the induction of pro-inflammatory mediators. These cellular responses, in turn, determine the overall pathologic outcomes (e.g., inflammation, fibrosis) that lead to the development of V<sub>2</sub>O<sub>5</sub>-induced bronchitis.</p>
         <p>While much is known about signal transduction pathways that are activated by vanadium-induced oxidative stress, much less is know about genes that are regulated by these signaling pathways. In this study, we investigated V<sub>2</sub>O<sub>5</sub>-induced gene expression in cultured normal human lung fibroblasts using microarray analysis in order to gain a better understanding of the genes that mediate the pathogenesis of fibrosis.</p>
      </sec>
      <sec>
         <st>
            <p>Methods</p>
         </st>
         <sec>
            <st>
               <p>Cell culture and materials</p>
            </st>
            <p>Normal adult human lung fibroblasts (ATCC 16 Lu) were purchased from American Type Culture Collection (Rockville, MD). Fibroblasts were seeded into 175 cm<sup>2 </sup>plastic culture flasks and grown to confluence in 10% fetal bovine serum (FBS)/Dulbecco's modified Eagle's medium (DMEM), then trypsin-liberated, and seeded into 150 mm dishes. Confluent monolayers were rendered quiescent for 24 hrs in serum-free defined medium (SFDM) that consisted of Ham's F-12 medium with 0.25% BSA with an insulin/transferrin/selenium supplement. Cells were treated with 10 &#956;g/cm<sup>2 </sup>vanadium pentoxide, V<sub>2</sub>O<sub>5 </sub>(Aldrich Chemical, Milwaukee, WI) or SFDM and RNA was harvested from the fibroblast cultures at 1, 4, 8, 12 and 24 hrs post-treatment. We previously reported that this dose of V<sub>2</sub>O<sub>5 </sub>causes minimal cytotoxicity (&lt;10% by lactate dehydrogenase assay) and yet induces H<sub>2</sub>O<sub>2 </sub>production, activates intracellular signaling pathways (e.g., MAP kinases), and upregulates growth factor production by human lung fibroblasts <abbrgrp><abbr bid="B11">11</abbr></abbrgrp>. RNA from an SFDM control was harvested at each of these time points to normalize the V<sub>2</sub>O<sub>5 </sub>treatment at the same corresponding time point. Three replicate arrays were analyzed for SFDM and V<sub>2</sub>O<sub>5 </sub>treatment groups at each of the five time points tested.</p>
         </sec>
         <sec>
            <st>
               <p>Microarray hybridizations and data analysis</p>
            </st>
            <p>Human lung fibroblast RNA was isolated using RNeasy columns (Qiagen, Valencia, CA). RNA quality was verified by spectrophotometry and gel electrophoresis using the Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA). Probe preparation and hybridization to the microarray was performed in the CIIT Gene Expression Core Facility using standard Affymetrix procedures. Double-stranded cDNA was synthesized from RNA using an oligo-dT24-T7. Biotinylated cRNA was synthesized from an aliquot of the cDNA template using the T7 RNA Transcript Labeling Kit (ENZO Diagnostics, Farmingdale NY). The labeled cRNA was then fragmented, hybridized to Affymetrix Human Genome U133A 2.0 arrays (Affymetrix, Santa Clara, CA), and stained using phycoerythrein-conjugated streptavidin (Molecular Probes, Eugene, OR). Gene expression results have been deposited in the National Center for Biotechnology Information (NCBI) Expression Omnibus database  <abbrgrp><abbr bid="B16">16</abbr></abbrgrp>(Accession Number GSE5339).</p>
         </sec>
         <sec>
            <st>
               <p>Statistical analysis and data processing</p>
            </st>
            <p>The microarray data were preprocessed using RMA with a log base 2 (log<sub>2</sub>) transformation <abbrgrp><abbr bid="B17">17</abbr></abbrgrp>. Statistical analysis of the data was performed in R using the affyImGUI package <abbrgrp><abbr bid="B18">18</abbr><abbr bid="B19">19</abbr></abbrgrp>. To identify genes with significant changes in expression following V<sub>2</sub>O<sub>5 </sub>exposure, all treatment groups were analyzed using a linear model with contrasts between untreated fibroblasts and V<sub>2</sub>O<sub>5</sub>-exposed fibroblasts at each time point. Genes from all of the five gene lists were combined for the final analysis. Probability values were adjusted for multiple comparisons using a false discovery rate of 5% (FDR = 0.05) <abbrgrp><abbr bid="B20">20</abbr></abbrgrp>. Genes identified as statistically significant were subject to an additional filter by selecting only those genes that exhibited a &#8805; 2-fold change from the untreated fibroblasts. Analysis of gene ontology (GO) categories was performed using NIH DAVID <abbrgrp><abbr bid="B21">21</abbr></abbrgrp>. Statistical significance of the GO results was assessed using a hypergeometric test <abbrgrp><abbr bid="B21">21</abbr></abbrgrp>. GO category hierarchy was obtained using AmiGO <abbrgrp><abbr bid="B22">22</abbr></abbrgrp> and used to discard general categories from the DAVID analysis within the first three levels. Data for genes changed more than 2-fold were clustered using Cluster 3.0 <abbrgrp><abbr bid="B22">22</abbr></abbrgrp> and visualized using the Mapletree Software program <abbrgrp><abbr bid="B24">24</abbr></abbrgrp>.</p>
         </sec>
         <sec>
            <st>
               <p>Real Time quantitative RT-PCR</p>
            </st>
            <p>Total RNA from human lung fibroblasts was isolated using the Qiagen RNeasy Miniprep kit (Valencia, CA). One or two micrograms of total RNA was reverse transcribed at 48&#176;C for 30 minutes using Multiscribe Reverse Transcriptase (Applied Biosystems, Foster City, CA) in 1 &#215; RT buffer, 5.5 mM MgCl<sub>2</sub>, 0.5 &#956;M of each dNTP, 2.5 &#956;M of random hexamers, and 0.4 U/&#956;L RNAse inhibitor in a volume of 100 &#956;l. One hundred nanograms of the RT product was amplified using Taqman Gene Expression Assays on the Applied Biosystems 7700 Prism<sup>&#174; </sup>Sequence Detection System (Applied Biosytems, Foster City, CA). The PCR conditions and data analysis were performed according to the manufacturer's protocol described in User bulletin no.2, Applied Biosystems Prism 7700 Sequence Detection System. All samples were run in triplicate. Gene expression was measured by the quantitation of cDNA converted from mRNA corresponding to <it>VEGF</it>, <it>CTGF</it>, <it>HBEGF</it>, <it>IL8</it>, <it>CXCL9</it>, <it>CXCL10</it>, <it>PIPOX</it>, <it>OXR1</it>, <it>SOD2</it>, <it>STAT1</it>, <it>GAS1</it>, and <it>EGR1 </it>relative to the untreated control groups and normalized to 18S. 18S expression was not significantly changed in the microarrray experiment and therefore served as an appropriate housekeeping gene. Relative quantitation values (<inline-formula><m:math name="1465-9921-8-34-i1" xmlns:m="http://www.w3.org/1998/Math/MathML"><m:semantics><m:mrow><m:msup><m:mn>2</m:mn><m:mrow><m:mo>&#8722;</m:mo><m:mi>&#916;</m:mi><m:mi>&#916;</m:mi><m:msub><m:mtext>C</m:mtext><m:mtext>T</m:mtext></m:msub></m:mrow></m:msup></m:mrow><m:annotation encoding="MathType-MTEF">
 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqaIYaGmdaahaaWcbeqaaiabgkHiTiabfs5aejabfs5aejabboeadnaaBaaameaacqqGubavaeqaaaaaaaa@33ED@</m:annotation></m:semantics></m:math></inline-formula>) were expressed as fold-change.</p>
         </sec>
      </sec>
      <sec>
         <st>
            <p>Results</p>
         </st>
         <p>Exposure of human lung fibroblasts to V<sub>2</sub>O<sub>5 </sub>resulted in significantly altered expression of over 1400 genes on the Affymetrix Human Genome U133A 2.0 Array. The majority of significantly changed genes were suppressed by V<sub>2</sub>O<sub>5 </sub>exposure over the 24 hr time course. Four major temporal patterns of gene expression were identified by hierarchical clustering analysis; progressively induced genes (Fig. <figr fid="F1">1A</figr> and <figr fid="F1">1B</figr>), genes that were induced in a biphasic manner (Fig. <figr fid="F1">1C</figr>), progressively suppressed genes (Fig. <figr fid="F1">1D</figr>) and early induced, late suppressed genes (Fig. <figr fid="F1">1E</figr>). Examples of genes from each of these temporal categories are shown in Fig. <figr fid="F2">2</figr>. The cellular localization and functions of selected genes from each of these categories is shown in Table <tblr tid="T1">1</tblr>.</p>
         <fig id="F1">
            <title>
               <p>Figure 1</p>
            </title>
            <caption>
               <p>Heatmap showing hierarchical clustering of human lung fibroblast genes significantly induced (RED) or suppressed (GREEN) by V<sub>2</sub>O<sub>5 </sub>treatment</p>
            </caption>
            <text>
               <p>Heatmap showing hierarchical clustering of human lung fibroblast genes significantly induced (RED) or suppressed (GREEN) by V<sub>2</sub>O<sub>5 </sub>treatment. Gene expression in response to V<sub>2</sub>O<sub>5 </sub>was considered significant if p-value &#8804; 0.05 and exhibited &#8805; 2-fold change over untreated control. <b>Left panel</b>: All genes changed more than 2-fold. <b>Panels A and B</b>: Representative clusters of genes progressively induced. <b>Panel C</b>: Representative cluster of genes induced in a biphasic manner. <b>Panel D</b>: Representative cluster of suppressed genes. <b>Panel E</b>: Representative clusters of genes induced early then suppressed late.</p>
            </text>
            <graphic file="1465-9921-8-34-1"/>
         </fig>
         <fig id="F2">
            <title>
               <p>Figure 2</p>
            </title>
            <caption>
               <p>Gene expression profiles of selected genes of interest that fit one of four different temporal expression categories</p>
            </caption>
            <text>
               <p>Gene expression profiles of selected genes of interest that fit one of four different temporal expression categories. Fold changes in gene expression over the time course of the experiment are shown on a log<sub>2 </sub>scale. <b>A) </b>Progressively induced genes, <b>B) </b>Progressively suppressed genes, <b>C) </b>Genes induced early and suppressed late, and <b>D) </b>Genes induced in a biphasic manner. The cellular localization and function of each of these genes are shown in Table 1.</p>
            </text>
            <graphic file="1465-9921-8-34-2"/>
         </fig>
         <tbl id="T1">
            <title>
               <p>Table 1</p>
            </title>
            <caption>
               <p>Temporal expression categories of selected genes significantly induced or suppressed by V<sub>2</sub>O<sub>5 </sub>exposure and their cellular localization and functions (See Fig. 2).</p>
            </caption>
            <tblbdy cols="5">
               <r>
                  <c ca="left">
                     <p>
                        <b>Accession#</b>
                        <sup>a</sup>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Gene Symbol</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Gene Name</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Localization</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Function</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c cspan="5">
                     <hr/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>
                           <ul>Progressively Induced Genes</ul>
                        </b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.25590</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>STC1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Stanniocalcin</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Cellular Metabolism</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.448611</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>PBEF1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Pre-B Cell Colony Enhancing Factor 1</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Inflammation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.78913</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CX3CR1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Chemokine (C-X3-C motif) Receptor 1</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>Inflammation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.515258</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>GDF15</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Growth and Differentiation Factor-15</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Growth Inhibition</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.471221</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>KLF7</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Kruppel-like factor 7</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.525704</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>JUN</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>V-jun sarcoma virus 17 oncogene</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>
                           <ul>Progressively Suppressed Gene</ul>
                        </b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.65029</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>GAS1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Growth Arrest Specific Gene 1</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Growth Arrest and Apoptosis</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.519162</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>BTG2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>B-Cell Translocation Gene 2</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Growth Arrest</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.255935</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>BTG1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>B-Cell Translocation Gene 1</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Growth Arrest</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.8375</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>TRAF4</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>TNF Receptor-Associated Factor</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>Inflammation/Immunity</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 109225</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>VCAM1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Vascular Cell Adhesion Molecule 1</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>Cell Adhesion</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.519909</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>MARCKS</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Myristolated Alanine-rich C Kinase Substrate</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>
                           <ul>Early Induced I/Late Suppressed Genes</ul>
                        </b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.298654</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>DUSP6</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>MAP kinase phosphatase 3</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.532411</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>LYST</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Lysosomal Trafficking Regulator Gene</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.514746</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>GATA6</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>GATA6 Transcription Factor</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.37982</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>NEDD9</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Neural expressed Develop. down-regulated 9</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>Cell Adhesion</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.502328</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CD44</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>CD44 molecule (Indian blood group)</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.59332</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>SPRED2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Sprouty-Related EVH Domain-2</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>
                           <ul>Biphasic Induced Genes</ul>
                        </b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.326035</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>EGR1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Early Growth Response-1 Gene</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic/Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.534313</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>EGR3</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Early Growth Response-3 Gene</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic/Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.73853</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>BMP2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Bone Morphogenic Protein-1</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Cell Differentiation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.591241</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CCNT2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Cyclin T2</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Cell Cycle Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.62661</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>GBP1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>guanylate-binding protein 1, IFN-inducible</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Antiviral Activitiy</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.419240</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>SLC2A3</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Solute Carrier Family 2 (GLUT3)</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>Metabolism</p>
                  </c>
               </r>
            </tblbdy>
            <tblfn>
               <p><sup>a</sup>Gene annotat ions are from NCBI <url>http://www.ncbi.nlm.nih.gov</url>.</p>
            </tblfn>
         </tbl>
         <p>An analysis of the biological processes (gene ontology categories) affected by V<sub>2</sub>O<sub>5 </sub>exposure in human lung fibroblasts was performed using the NIH DAVID program <abbrgrp><abbr bid="B21">21</abbr></abbrgrp>. This analysis revealed that certain GO categories were unique to V<sub>2</sub>O<sub>5</sub>-induced genes, including <it>chemotaxis</it>, <it>inflammatory response</it>, <it>immune response</it>, and <it>cell-cell signaling </it>(Table <tblr tid="T2">2</tblr>). GO categories that were unique to suppressed genes included <it>ubiquitin cycle</it>, <it>cell cycle</it>, <it>DNA repair</it>, <it>nuclear transport</it>, and <it>programmed cell death</it>. A few categories such as <it>RNA processing </it>were common to induced and suppressed genes.</p>
         <tbl id="T2">
            <title>
               <p>Table 2</p>
            </title>
            <caption>
               <p>Functional analysis of genes induced or suppressed by V<sub>2</sub>O<sub>5 </sub>in human lung fibroblasts.<sup>a</sup></p>
            </caption>
            <tblbdy cols="5">
               <r>
                  <c ca="left">
                     <p>
                        <b>GO ID</b>
                        <sup>b</sup>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>GO Category</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Genes</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>%</b>
                        <sup>c</sup>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>P value</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c cspan="5">
                     <hr/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>
                           <ul>Induced Genes</ul>
                        </b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0009605</p>
                  </c>
                  <c ca="left">
                     <p>response to external stimulus</p>
                  </c>
                  <c ca="left">
                     <p>32</p>
                  </c>
                  <c ca="left">
                     <p>8.47</p>
                  </c>
                  <c ca="left">
                     <p>1.43E-05</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006935</p>
                  </c>
                  <c ca="left">
                     <p>chemotaxis</p>
                  </c>
                  <c ca="left">
                     <p>13</p>
                  </c>
                  <c ca="left">
                     <p>3.44</p>
                  </c>
                  <c ca="left">
                     <p>6.96E-05</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0009611</p>
                  </c>
                  <c ca="left">
                     <p>response to wounding</p>
                  </c>
                  <c ca="left">
                     <p>25</p>
                  </c>
                  <c ca="left">
                     <p>6.61</p>
                  </c>
                  <c ca="left">
                     <p>1.81E-04</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0042221</p>
                  </c>
                  <c ca="left">
                     <p>response to chemical stimulus</p>
                  </c>
                  <c ca="left">
                     <p>23</p>
                  </c>
                  <c ca="left">
                     <p>6.08</p>
                  </c>
                  <c ca="left">
                     <p>2.51 E-04</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006950</p>
                  </c>
                  <c ca="left">
                     <p>response to stress</p>
                  </c>
                  <c ca="left">
                     <p>44</p>
                  </c>
                  <c ca="left">
                     <p>11.64</p>
                  </c>
                  <c ca="left">
                     <p>0.003553</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006928</p>
                  </c>
                  <c ca="left">
                     <p>cell motility</p>
                  </c>
                  <c ca="left">
                     <p>15</p>
                  </c>
                  <c ca="left">
                     <p>3.97</p>
                  </c>
                  <c ca="left">
                     <p>0.005005</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006396</p>
                  </c>
                  <c ca="left">
                     <p>RNA processing</p>
                  </c>
                  <c ca="left">
                     <p>19</p>
                  </c>
                  <c ca="left">
                     <p>5.03</p>
                  </c>
                  <c ca="left">
                     <p>0.005027</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0008380</p>
                  </c>
                  <c ca="left">
                     <p>RNA splicing</p>
                  </c>
                  <c ca="left">
                     <p>11</p>
                  </c>
                  <c ca="left">
                     <p>2.91</p>
                  </c>
                  <c ca="left">
                     <p>0.007903</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006954</p>
                  </c>
                  <c ca="left">
                     <p>inflammatory response</p>
                  </c>
                  <c ca="left">
                     <p>13</p>
                  </c>
                  <c ca="left">
                     <p>3.44</p>
                  </c>
                  <c ca="left">
                     <p>0.011869</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0008284</p>
                  </c>
                  <c ca="left">
                     <p>positive regulation of cell proliferation</p>
                  </c>
                  <c ca="left">
                     <p>10</p>
                  </c>
                  <c ca="left">
                     <p>2.65</p>
                  </c>
                  <c ca="left">
                     <p>0.013783</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006955</p>
                  </c>
                  <c ca="left">
                     <p>immune response</p>
                  </c>
                  <c ca="left">
                     <p>33</p>
                  </c>
                  <c ca="left">
                     <p>8.73</p>
                  </c>
                  <c ca="left">
                     <p>0.018616</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0007267</p>
                  </c>
                  <c ca="left">
                     <p>cell-cell signaling</p>
                  </c>
                  <c ca="left">
                     <p>23</p>
                  </c>
                  <c ca="left">
                     <p>6.08</p>
                  </c>
                  <c ca="left">
                     <p>0.042107</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>
                           <ul>Suppressed Genes</ul>
                        </b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0045449</p>
                  </c>
                  <c ca="left">
                     <p>regulation of transcription</p>
                  </c>
                  <c ca="left">
                     <p>298</p>
                  </c>
                  <c ca="left">
                     <p>19.34</p>
                  </c>
                  <c ca="left">
                     <p>3.61 E-25</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006512</p>
                  </c>
                  <c ca="left">
                     <p>ubiquitin cycle</p>
                  </c>
                  <c ca="left">
                     <p>81</p>
                  </c>
                  <c ca="left">
                     <p>5.26</p>
                  </c>
                  <c ca="left">
                     <p>1.16E-10</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006391</p>
                  </c>
                  <c ca="left">
                     <p>RNA processing</p>
                  </c>
                  <c ca="left">
                     <p>72</p>
                  </c>
                  <c ca="left">
                     <p>4.67</p>
                  </c>
                  <c ca="left">
                     <p>6.25E-10</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0007049</p>
                  </c>
                  <c ca="left">
                     <p>cell cycle</p>
                  </c>
                  <c ca="left">
                     <p>113</p>
                  </c>
                  <c ca="left">
                     <p>7.33</p>
                  </c>
                  <c ca="left">
                     <p>4.42E-08</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006974</p>
                  </c>
                  <c ca="left">
                     <p>response to DNA damage stimulus</p>
                  </c>
                  <c ca="left">
                     <p>52</p>
                  </c>
                  <c ca="left">
                     <p>3.37</p>
                  </c>
                  <c ca="left">
                     <p>1.13E-07</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006295</p>
                  </c>
                  <c ca="left">
                     <p>DNA metabolism</p>
                  </c>
                  <c ca="left">
                     <p>94</p>
                  </c>
                  <c ca="left">
                     <p>6.10</p>
                  </c>
                  <c ca="left">
                     <p>2.23E-06</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0006281</p>
                  </c>
                  <c ca="left">
                     <p>DNA repair</p>
                  </c>
                  <c ca="left">
                     <p>43</p>
                  </c>
                  <c ca="left">
                     <p>2.79</p>
                  </c>
                  <c ca="left">
                     <p>1.23E-05</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0008380</p>
                  </c>
                  <c ca="left">
                     <p>RNA splicing</p>
                  </c>
                  <c ca="left">
                     <p>33</p>
                  </c>
                  <c ca="left">
                     <p>2.14</p>
                  </c>
                  <c ca="left">
                     <p>2.56E-05</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0007243</p>
                  </c>
                  <c ca="left">
                     <p>protein kinase cascade</p>
                  </c>
                  <c ca="left">
                     <p>50</p>
                  </c>
                  <c ca="left">
                     <p>3.24</p>
                  </c>
                  <c ca="left">
                     <p>3.39E-05</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0051301</p>
                  </c>
                  <c ca="left">
                     <p>cell division</p>
                  </c>
                  <c ca="left">
                     <p>31</p>
                  </c>
                  <c ca="left">
                     <p>2.01</p>
                  </c>
                  <c ca="left">
                     <p>2.71 E-04</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0051169</p>
                  </c>
                  <c ca="left">
                     <p>nuclear transport</p>
                  </c>
                  <c ca="left">
                     <p>23</p>
                  </c>
                  <c ca="left">
                     <p>1.49</p>
                  </c>
                  <c ca="left">
                     <p>6.27E-04</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0016310</p>
                  </c>
                  <c ca="left">
                     <p>phosphorylation</p>
                  </c>
                  <c ca="left">
                     <p>88</p>
                  </c>
                  <c ca="left">
                     <p>5.71</p>
                  </c>
                  <c ca="left">
                     <p>8.76E-04</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0019538</p>
                  </c>
                  <c ca="left">
                     <p>protein metabolism</p>
                  </c>
                  <c ca="left">
                     <p>311</p>
                  </c>
                  <c ca="left">
                     <p>20.18</p>
                  </c>
                  <c ca="left">
                     <p>0.001149</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0030518</p>
                  </c>
                  <c ca="left">
                     <p>steroid hormone receptor signaling pathway</p>
                  </c>
                  <c ca="left">
                     <p>13</p>
                  </c>
                  <c ca="left">
                     <p>0.84</p>
                  </c>
                  <c ca="left">
                     <p>0.001328</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0050658</p>
                  </c>
                  <c ca="left">
                     <p>RNA transport</p>
                  </c>
                  <c ca="left">
                     <p>12</p>
                  </c>
                  <c ca="left">
                     <p>0.78</p>
                  </c>
                  <c ca="left">
                     <p>0.002917</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0012501</p>
                  </c>
                  <c ca="left">
                     <p>programmed cell death</p>
                  </c>
                  <c ca="left">
                     <p>76</p>
                  </c>
                  <c ca="left">
                     <p>4.93</p>
                  </c>
                  <c ca="left">
                     <p>0.003907</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0001558</p>
                  </c>
                  <c ca="left">
                     <p>regulation of cell growth</p>
                  </c>
                  <c ca="left">
                     <p>22</p>
                  </c>
                  <c ca="left">
                     <p>1.43</p>
                  </c>
                  <c ca="left">
                     <p>0.004779</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0016568</p>
                  </c>
                  <c ca="left">
                     <p>chromatin modification</p>
                  </c>
                  <c ca="left">
                     <p>22</p>
                  </c>
                  <c ca="left">
                     <p>1.43</p>
                  </c>
                  <c ca="left">
                     <p>0.005351</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0007259</p>
                  </c>
                  <c ca="left">
                     <p>JAK-STAT cascade</p>
                  </c>
                  <c ca="left">
                     <p>9</p>
                  </c>
                  <c ca="left">
                     <p>0.58</p>
                  </c>
                  <c ca="left">
                     <p>0.008321</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0007050</p>
                  </c>
                  <c ca="left">
                     <p>cell cycle arrest</p>
                  </c>
                  <c ca="left">
                     <p>14</p>
                  </c>
                  <c ca="left">
                     <p>0.91</p>
                  </c>
                  <c ca="left">
                     <p>0.013090</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0016055</p>
                  </c>
                  <c ca="left">
                     <p>Wnt receptor signaling pathway</p>
                  </c>
                  <c ca="left">
                     <p>18</p>
                  </c>
                  <c ca="left">
                     <p>1.17</p>
                  </c>
                  <c ca="left">
                     <p>0.020398</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0015031</p>
                  </c>
                  <c ca="left">
                     <p>protein transport</p>
                  </c>
                  <c ca="left">
                     <p>65</p>
                  </c>
                  <c ca="left">
                     <p>4.22</p>
                  </c>
                  <c ca="left">
                     <p>0.034144</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0008286</p>
                  </c>
                  <c ca="left">
                     <p>insulin receptor signaling pathway</p>
                  </c>
                  <c ca="left">
                     <p>6</p>
                  </c>
                  <c ca="left">
                     <p>0.39</p>
                  </c>
                  <c ca="left">
                     <p>0.039295</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>0007249</p>
                  </c>
                  <c ca="left">
                     <p>l-kappaB kinase/NF-kappaB cascade</p>
                  </c>
                  <c ca="left">
                     <p>18</p>
                  </c>
                  <c ca="left">
                     <p>1.17</p>
                  </c>
                  <c ca="left">
                     <p>0.042224</p>
                  </c>
               </r>
            </tblbdy>
            <tblfn>
               <p><sup>a </sup>GO analysis performed using NIH DAVID <url>http://david.abcc.ncifcrf.gov</url>.</p>
               <p><sup>b </sup>Gene ontology ID numbers obtained from AmiGO <url>http://www.genedb.org/amigo/perl/go.cgi</url>.</p>
               <p><sup>c</sup>% of total induced or suppressed genes.</p>
            </tblfn>
         </tbl>
         <p>While analysis of GO biological processes was useful in assessing the overall numbers of significantly changed genes in various functional categories, we selectively grouped genes that have been shown to play important roles in various aspects of tissue injury, repair, and remodeling. These categories included A) <it>cytokines and chemokines</it>, B) <it>growth factors</it>, C) <it>STAT signaling</it>, D) <it>cell cycle regulation</it>, E) <it>oxidative stress</it>, and F) <it>TGF-&#946; signaling </it>(Fig. <figr fid="F3">3</figr>). The functions and cellular localization of representative genes from each of these categories is shown in Table <tblr tid="T3">3</tblr>. A number of cytokines and chemokines were induced over the time course, including <it>IL8</it>, <it>IL-6</it>, <it>CCL8</it>, <it>CXCL9</it>, and <it>CXCL10</it>, while <it>IL15 </it>was suppressed in a time-dependent manner (Fig. <figr fid="F3">3A</figr>). <it>VEGF</it>, <it>HGF</it>, and <it>HBEGF </it>were progressively induced, while <it>FGF2 </it>and <it>FGF9 </it>were suppressed (Fig. <figr fid="F3">3B</figr>). <it>CTGF </it>was induced early (4 hrs) and suppressed late. Members of the STAT signaling pathway were differentially regulated (Fig. <figr fid="F3">3C</figr>). IRF-1 was induced in a biphasic manner. <it>SOCS3 </it>was progressively induced over the time course, while <it>SOCS1 </it>and <it>IFNGR </it>were progressively suppressed. Genes encoding cell cycle regulation were mainly suppressed, including <it>CDKN1B </it>and <it>CDKN1C</it>, which function to inhibit cell cycle progression (Fig. <figr fid="F3">3D</figr>). Oxidative stress genes were differentially regulated. In particular, <it>SOD2 </it>and <it>PIPOX</it>, which function in peroxide generation, were progressively induced (Fig. <figr fid="F3">3E</figr>). <it>OXR1 </it>and <it>OXSR1</it>, which are protective against oxidative stress, were suppressed. Genes involved in TGF-&#946; signaling and collagen deposition were suppressed, including <it>TGFB2</it>, <it>SMAD1</it>, <it>SMURF1</it>, <it>COL1A1</it>, <it>COL1A2</it>, and <it>COL3A1 </it>(Fig. <figr fid="F3">3F</figr>).</p>
         <tbl id="T3">
            <title>
               <p>Table 3</p>
            </title>
            <caption>
               <p>Cellular localization and functions of genes regulated by V<sub>2</sub>O<sub>5 </sub>grouped by functional categories (See Fig. 3).</p>
            </caption>
            <tblbdy cols="5">
               <r>
                  <c ca="left">
                     <p>
                        <b>Accession#</b>
                        <sup>a</sup>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Gene Symbol</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Gene Name</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Localization</b>
                     </p>
                  </c>
                  <c ca="left">
                     <p>
                        <b>Function</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c cspan="5">
                     <hr/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>Cytokines and Chemokines</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.512234</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>IL6</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>lnterleukin-6 (interferon beta2)</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Inflammation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.624</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>IL8</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>lnterleukin-8</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Neutrophil Chemotaxis</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 168132</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>IL15</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>lnterleukin-15</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>T Lymphocyte Proliferation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.271387</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CCL8</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>CC Chemokine Ligand 8</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Neutrophil Chemotaxis</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.77367</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CXCL9</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Chemokine (C-X-C motif) Ligand 9 (Mig)</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Inflammation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.632586</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CXCL10</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Chemokine (C-X-C motif) Ligand 10 (IP-10)</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Inflammation</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>Growth Factors</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.73793</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>VEGF</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Vascular Endothelial Cell Growth Factor</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Endothelial Cell Growth</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.396530</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>HGF</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Hepatocyte Growth Factor</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Epithelial Cell Growth</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.799</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>HBEGF</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Heparin-Binding EGF-like Growth Factor</p>
                  </c>
                  <c ca="left">
                     <p>Membrane/Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Fibroblast Growth</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.591346</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CTGF</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Connective Tissue Growth Factor</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Collagen Synthesis</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.111</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>FGF9</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Fibroblast Growth Factor-9</p>
                  </c>
                  <c ca="left">
                     <p>Membrane/Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Fibroblast Growth</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.284244</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>FGF2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Fibroblast Growth Factor-2</p>
                  </c>
                  <c ca="left">
                     <p>Membrane/Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Fibroblast Growth</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>STAT Signaling</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.591081</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>JAK2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Janus Activated Kinase-2</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>STAT Phosphorylation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.436061</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>IRF1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Interferon-Regulatory Factor-1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic/Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.527973</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>SOCS3</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Suppressor of Cytokine Signaling-3</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.50640</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>SOCS1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Suppressor of Cytokine Signaling-1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.470943</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>STAT1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Signal Transducer Activator of Transcription</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Growth Arrest and Apoptosis</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.520414</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>IFNGR1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Interferon Gamma Receptor- 1</p>
                  </c>
                  <c ca="left">
                     <p>Membrane</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>Cell Cycle Regulation</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.238990</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CDKN1B</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Cyclin-Dependent Kinase lnhbitior-1B (Kip1)</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Cell Cycle Arrest</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 106070</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CDKN1C</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Cyclin-Dependent Kinase lnhibitor-1C (Kip2)</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Cell Cycle Arrest</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.525324</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CDKN2C</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Cyclin-Dependent Kinase lnhibitor-2C</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Cell Cycle Arrest</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.557646</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CDK9</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Cyclin-Dependent Kinase-9</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 184298</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CDK7</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Cyclin-Dependent Kinase-7</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Transcriptional Regulation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 13291</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>CCNG2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Cyclin G2</p>
                  </c>
                  <c ca="left">
                     <p>Nuclear</p>
                  </c>
                  <c ca="left">
                     <p>Cell Cycle Arrest</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>Oxidative Stress</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.475970</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>OXSR1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Oxidative Stress Response 1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Intracellular Kinase</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.487046</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>SOD2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Superoxide Dismutase 2 (SOD2)</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Peroxide Generation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 148778</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>OXR1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Oxidative Resistance 1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Anti-Oxidant</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.462585</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>PIPOX</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Pipecolic Acid Oxidase</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Peroxide Generation</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.465870</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>KEAP1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Kelch-like ECH-associated protein 1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Redox Homeostasis</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.406515</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>NQO1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>NAD(P)H:quinone oxidoreductase 1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Redox Homeostasis</p>
                  </c>
               </r>
               <r>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
                  <c>
                     <p/>
                  </c>
               </r>
               <r>
                  <c cspan="5" ca="left">
                     <p>
                        <b>TGF-beta Signaling and Collagen</b>
                     </p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 133379</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>TGFB2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Transforming Growth Factor beta-2</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Matrix Synthesis, Immunity</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.519005</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>SMAD1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>mothers against DPP homolog 1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 189329</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>SMURF1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Smad Ubiquitin Regulatory Factor-1</p>
                  </c>
                  <c ca="left">
                     <p>Cytoplasmic</p>
                  </c>
                  <c ca="left">
                     <p>Cell Signaling</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.489142</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>COL1A2</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Collagen 1A2</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Structural Protein</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs. 172928</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>COL1A1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Collagen 1A1</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Structural Protein</p>
                  </c>
               </r>
               <r>
                  <c ca="left">
                     <p>Hs.443625</p>
                  </c>
                  <c ca="left">
                     <p>
                        <it>COL3A1</it>
                     </p>
                  </c>
                  <c ca="left">
                     <p>Collagen 3A1</p>
                  </c>
                  <c ca="left">
                     <p>Secreted</p>
                  </c>
                  <c ca="left">
                     <p>Structural Protein</p>
                  </c>
               </r>
            </tblbdy>
            <tblfn>
               <p><sup>a</sup>Gene annotations are from NCBI <url>http://www.ncbi.nlm.nih.gov</url>.</p>
            </tblfn>
         </tbl>
         <fig id="F3">
            <title>
               <p>Figure 3</p>
            </title>
            <caption>
               <p>Gene expression profiles of selected genes for six functional categories</p>
            </caption>
            <text>
               <p>Gene expression profiles of selected genes for six functional categories. Fold changes in gene expression over the time course of the experiment are shown on a log<sub>2 </sub>scale. <b>A) </b>Cytokines and Chemokines, <b>B) </b>Growth Factors, <b>C) </b>STAT Signaling, <b>D) </b>Cell Cycle Regulation, <b>E) </b>Oxidative Stress, and <b>F) </b>TGF-&#946; Signaling. The cellular localization and function of each of these genes are shown in Table 3.</p>
            </text>
            <graphic file="1465-9921-8-34-3"/>
         </fig>
         <p>Taqman quantitative real time RT-PCR was used to validate a dozen selected genes that were induced or suppressed by V<sub>2</sub>O<sub>5 </sub>exposure. We chose to validate 3 genes from each of the following categories (<it>growth factors, chemokines, transcription factors, oxidative stress</it>) that appear to have important roles in inflammation, repair, or fibrosis. The results obtained with Taqman quantitative RT-PCR closely mirrored the patterns of temporal induction or suppression observed in the microarray experiment (Fig. <figr fid="F4">4</figr>).</p>
         <fig id="F4">
            <title>
               <p>Figure 4</p>
            </title>
            <caption>
               <p>Validation of selected genes by Taqman quantitative RT-PCR</p>
            </caption>
            <text>
               <p>Validation of selected genes by Taqman quantitative RT-PCR. RNA was isolated from human lung fibroblasts treated with 10 &#956;g/cm<sup>2 </sup>V<sub>2</sub>O<sub>5 </sub>at the indicated time points and RT-PCR performed as described in Methods. Three genes from four categories were validated; growth factors (top row: <it>VEGF</it>, <it>HBEGF</it>, <it>CTGF</it>), chemokines (second row: <it>IL8</it>, <it>CXCL9</it>, <it>CXCL10</it>), transcription factors (third row: <it>Egr1</it>, <it>STAT1</it>, <it>GAS1</it>), and oxidative stress genes (bottom row: <it>PIPOX</it>, <it>OXR1</it>, <it>SOD2</it>). The data for each gene was normalized against 18S housekeeping gene and expressed as the mean ratio. Data are representative of at least two replicate experiments and expressed as the mean &#177; sem of triplicate dishes of cells. The temporal pattern of each V<sub>2</sub>O<sub>5</sub>-altered gene validated by RT-PCR is compared with the result obtained from the microarray experiment (open diamonds).</p>
            </text>
            <graphic file="1465-9921-8-34-4"/>
         </fig>
      </sec>
      <sec>
         <st>
            <p>Discussion</p>
         </st>
         <p>Occupational exposure to vanadium oxides has been associated with an increased incidence of obstructive airway disease and a reduction in lung function <abbrgrp><abbr bid="B1">1</abbr></abbrgrp>. In the present study, we investigated the temporal expression of genes in normal human lung fibroblasts exposed V<sub>2</sub>O<sub>5</sub>. We previously reported that 10 &#956;g/cm<sup>2 </sup>V<sub>2</sub>O<sub>5</sub>, the same dose used in our microarray experiment, causes minimal cytotoxicity (&lt;10%) to fibroblasts or epithelial cells over a 24 hr time period <abbrgrp><abbr bid="B10">10</abbr><abbr bid="B11">11</abbr></abbrgrp>. This concentration of V<sub>2</sub>O<sub>5 </sub>also causes several well-defined phenotypic changes in lung fibroblasts including a marked increase in H<sub>2</sub>O<sub>2 </sub>by fibroblasts <abbrgrp><abbr bid="B11">11</abbr></abbrgrp>, phosphorylation of the signal transducer and activator of transcription (STAT-1) <abbrgrp><abbr bid="B8">8</abbr></abbrgrp>, and increased expression of heparin-binding EGF-like growth factor, HBEGF <abbrgrp><abbr bid="B11">11</abbr></abbrgrp>. Our current study identified genes regulated by V<sub>2</sub>O<sub>5 </sub>that could play potentially important roles in oxidative stress, inflammation, growth, and apoptosis during V<sub>2</sub>O<sub>5</sub>-induced lung injury, remodeling and repair. Moreover, our investigation suggests that fibroblasts play an important role in orchestrating the responses of other pulmonary cell types, including neutrophils, airway epithelial cells, lymphocytes, and endothelial cells. The postulated roles of selected genes that were validated by RT-PCR in mediating V<sub>2</sub>O<sub>5</sub>-induced inflammation, repair, and fibrosis are illustrated in Fig. <figr fid="F5">5</figr>.</p>
         <fig id="F5">
            <title>
               <p>Figure 5</p>
            </title>
            <caption>
               <p>Illustration showing postulated roles of selected V<sub>2</sub>O<sub>5</sub>-induced or -suppressed genes in the context of upstream cell signaling events and downstream cell responses and pathologic consequences</p>
            </caption>
            <text>
               <p>Illustration showing postulated roles of selected V<sub>2</sub>O<sub>5</sub>-induced or -suppressed genes in the context of upstream cell signaling events and downstream cell responses and pathologic consequences. All genes shown were validated by quantitative RT-PCR (see Fig. 4).</p>
            </text>
            <graphic file="1465-9921-8-34-5"/>
         </fig>
         <p>A variety of genes encoding cytokines and chemokines were induced or suppressed by V<sub>2</sub>O<sub>5</sub>. For example, V<sub>2</sub>O<sub>5 </sub>induced <it>IL8 </it>and <it>IL6</it>, which play important roles in acute inflammation. We validated the strong induction of <it>IL8 </it>mRNA by RT-PCR. Vanadium rich oil fly ash has been reported to increase <it>IL8 </it>and <it>IL6 </it>mRNA and protein expression in normal human airway epithelial cells <abbrgrp><abbr bid="B25">25</abbr><abbr bid="B26">26</abbr></abbrgrp>. Moreover, workers exposed to vanadium-rich fuel oil ash have increased IL8 protein in nasal fluid <abbrgrp><abbr bid="B27">27</abbr></abbrgrp>. Chemokines induced by V<sub>2</sub>O<sub>5 </sub>could play important roles in the immune response. Notably, V<sub>2</sub>O<sub>5 </sub>induced <it>CXCL9 </it>(<it>Mig</it>) and <it>CXCL10 </it>(inducible protein-10), both of which were validated by RT-PCR. <it>CXCL9 </it>and <it>CXCL10 </it>are STAT1-dependent chemokines that function in the recruitment of lymphocytes <abbrgrp><abbr bid="B28">28</abbr></abbrgrp>. We previously showed that V<sub>2</sub>O<sub>5 </sub>activates STAT1 in lung fibroblasts <abbrgrp><abbr bid="B8">8</abbr></abbrgrp> and mice deficient in STAT1 are susceptible to pulmonary fibrosis <abbrgrp><abbr bid="B29">29</abbr></abbrgrp>. Moreover, we have observed intratracheal V<sub>2</sub>O<sub>5 </sub>exposure in rats causes lymphocytic accumulation surrounding airways and small blood vessels, as well causing proliferation of lymphocytes within the bronchus-associated lymphatic tissue adjacent to large airways <abbrgrp><abbr bid="B30">30</abbr></abbrgrp>. It is possible that STAT1-dependent induction of <it>CXCL9 </it>and <it>CXCL10 </it>could be a mechanism for lymphocyte accumulation around airways and blood vessels following lung injury by V<sub>2</sub>O<sub>5</sub>.</p>
         <p>Polypeptide growth factors have a variety of functions in airway remodeling that occurs after metal-induced lung injury. Our genomic analysis identified several growth factors that were validated by RT-PCR. Each of these genes had a different temporal pattern of expression. First, vascular endothelial cell growth factor (<it>VEGF</it>) was progressively induced after V<sub>2</sub>O<sub>5 </sub>treatment. Li and coworkers showed that vanadium induces the expression of <it>VEGF </it>in a mouse epithelial cell line through the activation of ERK <abbrgrp><abbr bid="B31">31</abbr></abbrgrp>. <it>VEGF </it>promotes angiogenesis by stimulating the proliferation of vascular endothelial cells and fibroblasts <abbrgrp><abbr bid="B32">32</abbr></abbrgrp>. Our data suggest that fibroblasts could function to promote the formation new blood vessels in V<sub>2</sub>O<sub>5</sub>-induced airway fibrotic lesions by signaling endothelial cells via VEGF protein or it is possible that secreted VEGF could stimulate fibroblast replication. Second, <it>HBEGF </it>gene expression was increased in a biphasic manner. <it>HBEGF </it>functions both in fibroblast mitogenesis and in epithelial repair <abbrgrp><abbr bid="B10">10</abbr><abbr bid="B11">11</abbr></abbrgrp>. Third, connective tissue growth factor (<it>CTGF</it>) was increased transiently in human lung fibroblasts and then suppressed. We have also reported that V<sub>2</sub>O<sub>5 </sub>increases <it>CTGF </it>mRNA in the lungs of rats exposed by intratracheal instillation <abbrgrp><abbr bid="B30">30</abbr></abbrgrp>. The temporal differences in the expression of <it>VEGF</it>, <it>HBEGF</it>, and <it>CTGF </it>after V<sub>2</sub>O<sub>5 </sub>treatment remain unclear. We have reported that the early induction of <it>HBEGF </it>is due to peroxide dependent activation of MAP kinases <abbrgrp><abbr bid="B11">11</abbr></abbrgrp>. We have also observed that V<sub>2</sub>O<sub>5</sub>-induced <it>CTGF </it>expression requires MAP kinases (Ingram and Bonner, unpublished observation). The late induction of <it>HBEGF </it>and <it>VEGF </it>could be due to the delayed induction of a transcriptional regulator gene that is increased in response to V<sub>2</sub>O<sub>5</sub>-induced oxidative stress. One such transcriptional regulator that serves as a master switch for growth factor induction is the early growth response (<it>EGR1</it>) gene. <it>EGR1 </it>was significantly induced at 4 and 24 hr following V<sub>2</sub>O<sub>5 </sub>treatment in both microarray and RTPCR experiments. <it>EGR1 </it>is induced by a variety of factors including cellular stress and functions as a transcriptional regulator to increase the expression of growth factor genes such as <it>VEGF </it><abbrgrp><abbr bid="B33">33</abbr></abbrgrp>.</p>
         <p>Other growth response genes, including the growth arrest specific (<it>GAS1</it>) gene and Bcell translocation genes (<it>BTG1 </it>and <it>BTG2</it>), were progressively suppressed in a time dependent manner after V<sub>2</sub>O<sub>5 </sub>exposure. <it>BTG1</it>, <it>BTG2</it>, and <it>GAS1 </it>are all anti-mitogenic factors that mediate growth arrest of fibroblasts <abbrgrp><abbr bid="B34">34</abbr><abbr bid="B35">35</abbr><abbr bid="B36">36</abbr></abbrgrp>. Cyclin-dependent kinase inhibitors, <it>CDKN1B </it>p27(Kip1) and <it>CDKN1C </it>p57(Kip2), were also progressively suppressed. These two kinase inhibitors mediate growth arrest and serve as tumor suppressors <abbrgrp><abbr bid="B37">37</abbr><abbr bid="B38">38</abbr></abbrgrp>. Overall, our data suggests that V<sub>2</sub>O<sub>5 </sub>stimulates the growth and survival of fibroblasts by suppressing genes encoding anti-mitogenic factors (<it>GAS1</it>, <it>BTG2</it>, <it>CDKN1B</it>, and <it>CDKN1C</it>). In particular, our RT-PCR results validated <it>GAS1 </it>suppression in V<sub>2</sub>O<sub>5</sub>-exposed fibroblasts. While the increased expression of growth factors (i.e., <it>VEGF</it>, <it>HBEGF</it>, <it>CTGF</it>) by fibroblasts exposed to V<sub>2</sub>O<sub>5 </sub>is likely important in promoting fibroblast growth and survival, the reduced expression of <it>GAS1 </it>by V<sub>2</sub>O<sub>5 </sub>could be equally important in promoting fibroblast replication and survival. Moreover, V<sub>2</sub>O<sub>5 </sub>progressively suppressed <it>GAS1 </it>over the entire time course of the experiment, indicating sustained loss of growth arrest control when growth factors such as <it>VEGF</it>, <it>HBEGF</it>, and <it>CTGF </it>were maximally induced.</p>
         <p>We found that V<sub>2</sub>O<sub>5 </sub>induced or suppressed a number of genes that are involved in oxidative stress. Vanadium compounds have been reported to activate several transcription factors and induce the release of inflammatory mediators through the generation of H<sub>2</sub>O<sub>2 </sub><abbrgrp><abbr bid="B13">13</abbr><abbr bid="B14">14</abbr><abbr bid="B8">8</abbr></abbrgrp>. Also, we previously reported that human lung fibroblasts exposed to V<sub>2</sub>O<sub>5 </sub>release micromolar amounts of H<sub>2</sub>O<sub>2 </sub><it>in vitro </it>12 to 18 hrs after V<sub>2</sub>O<sub>5 </sub>exposure <abbrgrp><abbr bid="B11">11</abbr></abbrgrp>. Two genes encoding peroxide-generating enzymes, <it>SOD2 </it>and <it>PIPOX</it>, were validated by RT-PCR. <it>SOD2 </it>was progressively increased over the 24 hr time course of V<sub>2</sub>O<sub>5 </sub>exposure. <it>SOD2 </it>serves as a major protective anti-oxidant defense enzyme that converts superoxide anion to H<sub>2</sub>O<sub>2 </sub><abbrgrp><abbr bid="B39">39</abbr></abbrgrp>. V<sub>2</sub>O<sub>5 </sub>undergoes redox chemistry to generate superoxide anion, so it is possible that <it>SOD2 </it>plays a role in reducing V<sub>2</sub>O<sub>5</sub>-induced lung injury. L-pipecolate oxidase (<it>PIPOX</it>), a peroxisomal oxidase, was also progressively induced by V<sub>2</sub>O<sub>5</sub>. <it>PIPOX </it>utilizes molecular oxygen as a substrate with H<sub>2</sub>O<sub>2 </sub>as a product <abbrgrp><abbr bid="B40">40</abbr></abbrgrp>. While V<sub>2</sub>O<sub>5 </sub>induces genes that generate peroxide (<it>SOD2</it>, <it>PIPOX</it>), we also validated suppression of the oxidative resistance gene (<it>OXR1</it>). Volkert and colleagues discovered the human <it>OXR1 </it>gene using a functional genomics approach in a search for genes that function in protection against oxidative damage <abbrgrp><abbr bid="B41">41</abbr></abbrgrp>. While <it>OXR1 </it>is protective against oxidative stress, the precise function of this gene is not well understood. Because <it>OXR1 </it>is protective against oxidative injury, suppression of this gene could contribute to V<sub>2</sub>O<sub>5</sub>-induced oxidative stress. Also, the temporal suppression of <it>OXR1 </it>occurs as <it>PIPOX </it>(a pro-oxidative stress gene) is temporally induced.</p>
         <p>V<sub>2</sub>O<sub>5 </sub>causes airway fibrosis in rats <it>in vivo</it>, and it is well known that increased collagen production defines the fibrotic lesion <abbrgrp><abbr bid="B4">4</abbr></abbrgrp>. TGF-&#946; is an essential mediator of collagen production by fibroblasts. Our results showed that <it>TGFB2</it>, along with its associated signaling intermediates <it>SMAD1 </it>and <it>SMURF1</it>, were all progressively suppressed by V<sub>2</sub>O<sub>5</sub>. Moreover, several major collagen genes (<it>COL1A2</it>, <it>COL1A1</it>, <it>COL3A1</it>) were suppressed as well. These data indicate that V<sub>2</sub>O<sub>5 </sub>does not directly stimulate fibroblasts to deposit collagen. Instead, it is likely that TGF-&#946; or other factors signals produced by neighboring pulmonary cell types to increase collagen production. TGF-&#946; mRNA is increased in the lungs of rats treated with V<sub>2</sub>O<sub>5</sub>. Therefore, during V<sub>2</sub>O<sub>5</sub>-induced fibrogenesis fibroblasts do not appear to be effectors of their own collagen deposition, but likely require other cell types (e.g., macrophages) as a source of TGF-&#946;.</p>
         <p>While we used lung fibroblasts in our study, it is highly relevant to consider the effect of V<sub>2</sub>O<sub>5 </sub>exposure on gene expression by other lung cell types, including epithelial cells. Li and colleagues used microarray analysis to investigate gene expression changes in human bronchial epithelial cells exposed to vanadium or zinc and identifed a small set of genes that could be used as biomarkers for discriminating vanadium from zinc <abbrgrp><abbr bid="B42">42</abbr></abbrgrp>. They also reported that <it>IL8 </it>and <it>PTGS2 </it>(COX-2) were induced several-fold by vanadium but not by zinc. <it>IL8 </it>and <it>PTGS2 </it>were also strongly induced in human lung fibroblasts by vanadium in our study. In fact, we previously reported that COX-2 null mice are susceptible to V<sub>2</sub>O<sub>5</sub>-induced lung fibrosis, which emphasized an important protective role for the <it>PTGS2 </it>gene during fibrogenesis <abbrgrp><abbr bid="B43">43</abbr></abbrgrp>.</p>
      </sec>
      <sec>
         <st>
            <p>Conclusion</p>
         </st>
         <p>A variety of genes were induced or suppressed in normal human lung fibroblasts by vanadium pentoxide (V<sub>2</sub>O<sub>5</sub>) that appear to have important functions in inflammation, fibrosis and repair. Our data suggest that both the induction of genes that mediate cell proliferation and chemotaxis (<it>VEGF</it>, <it>CTGF</it>, <it>HBEGF</it>), as well as suppression of genes involved in growth arrest and apoptosis (<it>GAS1</it>), is important to the lung fibrotic reaction to V<sub>2</sub>O<sub>5</sub>. The induction of interferon-inducible, STAT1-dependent chemokines (<it>CXCL9 and CXCL10</it>) could contribute to both suppression of fibroblast proliferation and lymphocyte accumulation. The strong induction of <it>IL8 </it>likely contributes to neutrophilic inflammation. An increase in peroxide-generating enzymes (<it>PIPOX</it>, <it>SOD2</it>) is consistent with H<sub>2</sub>O<sub>2 </sub>production by V<sub>2</sub>O<sub>5</sub>, while the reduced expression of protective oxidative response genes (e.g., <it>OXR1</it>) could further contribute to oxidative damage. Overall, our study reveals a wide variety of candidate genes that could mediate V<sub>2</sub>O<sub>5</sub>-induced airway remodeling after occupational and environmental exposures.</p>
      </sec>
      <sec>
         <st>
            <p>Abbreviations</p>
         </st>
         <p>V<sub>2</sub>O<sub>5</sub>, vanadium pentoxide; STAT-1, signal transducer and activator of transcription; GAS1, growth arrest specific gene; VEGF, vascular endothelial cell growth factor; CTGF, connective tissue growth factor; CXCL10, Chemokine (C-X-C motif) ligand 10; HB-EGF, heparin-binding epidermal growth factor-like growth factor; PTGS-2, prostaglandin synthase 2; OXR1, oxidative resistance gene; SOD2, superoxide dismutase-2; PIPOX, L-pipecolate oxidase.</p>
      </sec>
      <sec>
         <st>
            <p>Competing interests</p>
         </st>
         <p>The author(s) declare that they have no competing interests.</p>
      </sec>
      <sec>
         <st>
            <p>Authors' contributions</p>
         </st>
         <p>JLI and JCB designed the experiments, performed the data analysis, and drafted the manuscript. JLI, AAM, EAT, JBM, and DGW performed cell culture, RNA isolation, and validated changes in selected genes by Taqman quantitative real-time RT-PCR. LJP performed with microarray hybridizations. RST performed statistical analysis on the microarray data. All authors read and approved the final manuscript.</p>
      </sec>
   </bdy>
   <bm>
      <ack>
         <sec>
            <st>
               <p>Acknowledgements</p>
            </st>
            <p>The authors thank Dr. Longlong Yang for assistance with microarray data analysis. We are grateful to Dr. David Dorman, Dr. Kamin Johnson, and Dr. Wenhong Cao for helpful editorial suggestions during the preparation of this manuscript. This work was supported by the American Chemistry Council Long Range Research Initiative provided to the Hamner Institutes for Health Sciences (formerly CIIT Centers for Health Research).</p>
         </sec>
      </ack>
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