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  <front>
    <journal-meta>
      <journal-id journal-id-type="publisher-id">atmosphere</journal-id>
      <journal-title>Atmosphere</journal-title>
      <abbrev-journal-title abbrev-type="publisher">Atmosphere</abbrev-journal-title>
      <abbrev-journal-title abbrev-type="pubmed">Atmosphere</abbrev-journal-title>
      <issn pub-type="epub">2073-4433</issn>
      <publisher>
        <publisher-name>MDPI</publisher-name>
      </publisher>
    </journal-meta>
    <article-meta>
      <article-id pub-id-type="doi">10.3390/atmos3030288</article-id>
      <article-id pub-id-type="publisher-id">atmosphere-03-00288</article-id>
      <article-categories>
        <subj-group>
          <subject>Article</subject>
        </subj-group>
      </article-categories>
      <title-group>
        <article-title>Assessment of the Weather Research and Forecasting/Chemistry Model to Simulate Ozone Concentrations in March 2008 over Coastal Areas of the Sea of Japan</article-title>
      </title-group>
      <contrib-group>
        <contrib contrib-type="author">
          <name>
            <surname>Al Razi</surname>
            <given-names>Khandakar Md. Habib</given-names>
          </name>
          <xref rid="c1-atmosphere-03-00288" ref-type="corresp">*</xref>
        </contrib>
        <contrib contrib-type="author">
          <name>
            <surname>Hiroshi</surname>
            <given-names>Moritomi</given-names>
          </name>
        </contrib>
      </contrib-group>
      <aff id="af1-atmosphere-03-00288">Environmental and Renewable Energy System, Graduate School of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan; Email: <email>moritomi@gifu-u.ac.jp</email> </aff>
      <author-notes>
        <corresp id="c1-atmosphere-03-00288"><label>*</label> Author to whom correspondence should be addressed; Email: <email>habibalrajii@yahoo.com</email>; Tel./Fax: +81-58-293-2591.</corresp>
      </author-notes>
      <pub-date pub-type="epub">
        <day>10</day>
        <month>07</month>
        <year>2012</year>
      </pub-date>
      <pub-date pub-type="collection"><month>09</month>
        <year>2012</year>
      </pub-date>
      <volume>3</volume>
      <issue>3</issue>
      <fpage>288</fpage>
      <lpage>319</lpage>
      <history>
        <date date-type="received">
          <day>09</day>
          <month>02</month>
          <year>2012</year>
        </date>
        <date date-type="rev-recd">
          <day>10</day>
          <month>04</month>
          <year>2012</year>
        </date>
        <date date-type="accepted">
          <day>18</day>
          <month>06</month>
          <year>2012</year>
        </date>
      </history>
      <permissions>
        <copyright-statement>©  2012 by the authors; licensee MDPI, Basel, Switzerland.</copyright-statement>
        <copyright-year>2012</copyright-year>
        <license xmlns:xlink="http://www.w3.org/1999/xlink" license-type="open-access" xlink:href="http://creativecommons.org/licenses/by/3.0/">
          <p>This article is an open-access article distributed under the terms and conditions of the Creative Commons Attribution license (http://creativecommons.org/licenses/by/3.0/).</p>
        </license>
      </permissions>
      <abstract>
        <p>The fully coupled WRF/Chem (Weather Research and Forecasting/Chemistry) model is used to simulate air quality over coastal areas of the Sea of Japan. The anthropogenic surface emissions database used as input for this model was based primarily on global hourly emissions data (dust, sea salt, and biomass burning), RETRO (REanalysis of the TROpospheric chemical composition), GEIA (Global Emissions Inventory Activity), and POET (Precursors of Ozone and their Effects in the Troposphere). Climatologic concentrations of particulate matter derived from the Regional Acid Deposition Model (RADM2), chemical mechanism, and the Secondary Organic Aerosol Model (MADE/SORGAM) with aqueous reactions were used to deduce the corresponding aerosol fluxes for input to the WRF/Chem model. The model was first integrated continuously over 48 hours, starting from 00:00 UTC on 14 March 2008, to evaluate ozone concentrations and other precursor pollutants. WPS meteorological data were used for the WRF/Chem model simulation in this study. Despite the low resolution of global emissions and the weak density of the local point emissions, it was found that the WRF/Chem model simulates the diurnal variation of the chemical species concentrations over the coastal areas of the Sea of Japan quite well. The Air Quality Management Division of the Ministry of the Environment in Japan selected the maximum level of the air quality standard for ozone, which is 60 ppb. In this study, the atmospheric concentrations of ozone over the coastal area of the Sea of Japan were calculated to be 30–55 ppb during the simulation period, which was lower than the Japanese air quality standard for ozone.</p>
      </abstract>
      <kwd-group>
        <kwd>air quality modeling</kwd>
        <kwd>WRF/Chem</kwd>
        <kwd>ozone concentrations</kwd>
        <kwd>coastal area of the Sea of Japan</kwd>
      </kwd-group>
    </article-meta>
  </front>
  <body>
    <sec sec-type="intro">
      <title>1. Introduction</title>
      <p>At present, more than 60 million people are added to cities each year worldwide, and approximately 325 cities have a population of more than one million, compared to 270 such cities in 1990 [<xref ref-type="bibr" rid="B1-atmosphere-03-00288">1</xref>]. In recent decades, air quality has deteriorated remarkably in the large cities of developing countries. The export of air pollutants from urban to regional and global environments is of major concern because of wide-ranging potential consequences for human health and for cultivated and natural ecosystems, visibility degradation, weather modification, radiative forcing, and changes in tropospheric oxidation (self-cleaning) capacity. Rapidly increasing urbanization will be a major environmental driving force in the 21st century, affecting air quality on all scales (e.g., local, regional, and global) [<xref ref-type="bibr" rid="B1-atmosphere-03-00288">1</xref>]. Large numbers of people are likely to be exposed to unhealthy ozone (O<sub>3</sub>) concentrations when ground-level ozone accumulates in urban metropolitan areas under certain weather conditions [<xref ref-type="bibr" rid="B2-atmosphere-03-00288">2</xref>], and quantitative atmospheric dispersion models will be of great help to provide effective decision support systems for planners and administrators.</p>
      <p>The main pollutants emitted into the atmosphere in urban areas are sulfur oxides (SOx), nitrogen oxides (NOx), carbon monoxide (CO), volatile organic compounds (VOCs), metal oxides, and particulate matter (PM/aerosols), mostly consisting of black carbon, sulfates, nitrates, and organic matter. The oxidization of CO, VOCs, and NOx produces ozone in the planetary boundary layer (PBL), which has an important impact on human health in urban areas. The recent economic developments of China, Korea, and Japan are very rapid due to the rapid growth of heavy industrial operations. The rapidly growing urbanization in these countries will cause wide-ranging potential consequences in terms of environmental problems. These areas have been suffering from severe air pollution problems for the past decade, such as high particulate matter (PM) concentrations and poor visibility [<xref ref-type="bibr" rid="B3-atmosphere-03-00288">3</xref>,<xref ref-type="bibr" rid="B4-atmosphere-03-00288">4</xref>,<xref ref-type="bibr" rid="B5-atmosphere-03-00288">5</xref>,<xref ref-type="bibr" rid="B6-atmosphere-03-00288">6</xref>]. As industrial activity and the number of automobiles increases, the emission of volatile organic carbons (VOCs) and NOx (NO + NO<sub>2</sub>) will also significantly increase. Both VOCs and NOx play critical roles in ozone formation in the troposphere [<xref ref-type="bibr" rid="B7-atmosphere-03-00288">7</xref>,<xref ref-type="bibr" rid="B8-atmosphere-03-00288">8</xref>], and the variations in their concentrations and the ensuing effects on the ozone production rate can be characterized as either NOx-sensitive or VOC-sensitive [<xref ref-type="bibr" rid="B7-atmosphere-03-00288">7</xref>,<xref ref-type="bibr" rid="B9-atmosphere-03-00288">9</xref>,<xref ref-type="bibr" rid="B10-atmosphere-03-00288">10</xref>,<xref ref-type="bibr" rid="B11-atmosphere-03-00288">11</xref>,<xref ref-type="bibr" rid="B12-atmosphere-03-00288">12</xref>]. Thus, obtaining a better understanding of the relationship between ozone precursors (VOCs, NOx) and ozone formation in east Asia is one of the critical pre-required pieces of information necessary to develop effective ozone control strategies [<xref ref-type="bibr" rid="B13-atmosphere-03-00288">13</xref>,<xref ref-type="bibr" rid="B14-atmosphere-03-00288">14</xref>,<xref ref-type="bibr" rid="B15-atmosphere-03-00288">15</xref>].</p>
      <p>In Japan, VOC, NOx, and SOx were categorized as hazardous air pollutants (HAPs) in 1996 and are on the list of Substances Requiring Priority Action published by the Central Environmental Council of Japan [<xref ref-type="bibr" rid="B16-atmosphere-03-00288">16</xref>]. The Central Environmental Council published the second report on the “Future direction of measures against hazardous air pollutants” in October 1996. The second report also proposed that voluntary actions to reduce emissions, as well as investigations of hazards, atmospheric concentrations and pollution sources of those substances, should be promoted. Although industrial emissions of VOCs, NOx, and SO<sub>X</sub> in Japan have been decreasing in recent years, primarily due to voluntary reductions from industrial sources, the risks of exposure to these pollutants have remained largely unknown. In this study, a rapid change of ozone and its precursors were simulated during the spring of 2008. The simulation results contribute to a better understanding of ozone variability in coastal areas of the Sea of Japan [<xref ref-type="bibr" rid="B17-atmosphere-03-00288">17</xref>]. A three-dimensional chemical/dynamical regional model (WRF/Chem V-3.3) was applied to analyze the causes of the rapid changes in ozone during this period.</p>
      <p>Ozone is not emitted directly into the air; instead, it forms in the atmosphere as a result of a series of complex chemical reactions between oxides of nitrogen (NOx) and hydrocarbons, which together are precursors of ozone. Ozone precursors have both anthropogenic (man-made) and biogenic (natural) origins. Motor vehicle exhaust, industrial emissions, gasoline vapors, and chemical solvents are some of the major sources of NOx and hydrocarbons. Many species of trees and other plants emit hydrocarbons, and fertilized soils release NOx [<xref ref-type="bibr" rid="B18-atmosphere-03-00288">18</xref>,<xref ref-type="bibr" rid="B19-atmosphere-03-00288">19</xref>].</p>
      <p>In the presence of ultraviolet sunlight (<italic>hν</italic>), oxygen (O<sub>2</sub>) and nitrogen dioxide (NO<sub>2</sub>) react in the atmosphere to form ozone and nitric oxide (NO) [<xref ref-type="bibr" rid="B18-atmosphere-03-00288">18</xref>,<xref ref-type="bibr" rid="B19-atmosphere-03-00288">19</xref>]. The resultant ozone reacts with NO to form nitrogen dioxide. A steady state is attained through these reactions: </p>
      <p>NO<sub>2</sub> + <italic>hν </italic>→ NO + O</p>
      <p>NO + NO<sub>2</sub> + H<sub>2</sub>O → 2HONO</p>
      <p>HONO + <italic>hν</italic> → NO + OH</p>
      <p>O + O<sub>2</sub> → O<sub>3</sub></p>
      <p>CO + 2O<sub>2</sub> → CO<sub>2</sub> + O<sub>3</sub></p>
      <p>O<sub>3 </sub>+ NO → NO<sub>2</sub> + O<sub>2</sub></p>
      <p>Even in the absence of anthropogenic emissions, these reactions normally result in a natural background ozone concentration of 25 to 45 ppb [<xref ref-type="bibr" rid="B20-atmosphere-03-00288">20</xref>,<xref ref-type="bibr" rid="B21-atmosphere-03-00288">21</xref>]. Ozone cannot accumulate further unless volatile organic compounds (VOCs), which include hydrocarbons, are present to consume or convert NO back to NO<sub>2</sub> [<xref ref-type="bibr" rid="B19-atmosphere-03-00288">19</xref>,<xref ref-type="bibr" rid="B22-atmosphere-03-00288">22</xref>,<xref ref-type="bibr" rid="B23-atmosphere-03-00288">23</xref>], as in the following: </p>
      <p>VOC + NO → NO<sub>2</sub> + other products</p>
      <p>This equation is a simplified version of many complex chemical reactions. Because NO is consumed by this process, it is then no longer available to react with ozone. When additional VOCs are added to the atmosphere, a greater proportion of the NO is oxidized to NO<sub>2</sub>, resulting in a greater amount of ozone formation. Anthropogenic sources of NO lead to higher levels of NO<sub>2</sub> in the atmosphere, and this NO<sub>2</sub> is then available for photolysis. The formation and increase in ozone concentrations occur over a period of a few hours. Shortly after sunrise, NO and VOCs react in the presence of sunlight to form ozone. Throughout the morning, ozone concentrations increase while NO and VOCs are depleted. Eventually, either the lack of sunlight, NO, or VOCs limits the production of ozone. This diurnal cycle varies greatly depending on site location, emission sources, and weather conditions. Precursor emissions of NO and VOCs are necessary for ozone to form in the troposphere. Understanding the nature of when and where ozone precursors originate may help forecasters factor in day-to-day changes in emissions. For example, if region’s emissions are dominated by mobile sources, then emissions, and thus the ozone that forms from them, may depend on day-to-day commuting patterns. The primary sources of NOx production are combustion processes, including industrial and electric generation processes, and mobile sources such as automobiles [<xref ref-type="bibr" rid="B24-atmosphere-03-00288">24</xref>]. Mobile sources also account for a large portion of VOC emissions. Industries such as the chemical industry or others that use solvents also account for a large portion of VOC emissions. Biogenic VOC emissions from forested and vegetation areas may impact urban ozone formation in some parts of the country. Biogenic NOx emission levels are typically much lower than anthropogenic NOx emission levels [<xref ref-type="bibr" rid="B24-atmosphere-03-00288">24</xref>].</p>
      <p>In this study, a preliminary evaluation of the model performance was performed by comparing results to the online observations obtained from different monitoring stations over the past few years (2000–2008) in Japan. The spatial and temporal dynamics were studied using simulations performed with the Weather Research and Forecast (WRF) model [<xref ref-type="bibr" rid="B25-atmosphere-03-00288">25</xref>] coupled with the Chemistry model (WRF/Chem) [<xref ref-type="bibr" rid="B26-atmosphere-03-00288">26</xref>]. Due to the geographical complexity of the study area, an important part of the study was also to evaluate the model’s ability to represent the measured meteorological conditions and surface ozone levels.</p>
      <p>The development and occurrence of photochemical pollution episodes have been studied using air quality models (AQM) as they incorporate the contributing atmospheric physical and chemical processes [<xref ref-type="bibr" rid="B27-atmosphere-03-00288">27</xref>,<xref ref-type="bibr" rid="B28-atmosphere-03-00288">28</xref>,<xref ref-type="bibr" rid="B29-atmosphere-03-00288">29</xref>,<xref ref-type="bibr" rid="B30-atmosphere-03-00288">30</xref>,<xref ref-type="bibr" rid="B31-atmosphere-03-00288">31</xref>,<xref ref-type="bibr" rid="B32-atmosphere-03-00288">32</xref>]. The fully coupled weather chemistry model, WRF/Chem, is the next generation model currently used by many researchers for air quality studies [<xref ref-type="bibr" rid="B33-atmosphere-03-00288">33</xref>,<xref ref-type="bibr" rid="B34-atmosphere-03-00288">34</xref>,<xref ref-type="bibr" rid="B35-atmosphere-03-00288">35</xref>,<xref ref-type="bibr" rid="B36-atmosphere-03-00288">36</xref>,<xref ref-type="bibr" rid="B37-atmosphere-03-00288">37</xref>] over different regions. Misenis [<xref ref-type="bibr" rid="B35-atmosphere-03-00288">35</xref>] used WRF/Chem to study the air quality of the Houston–Galveston area and reported that the model planetary boundary layer (PBL) and land surface model (LSM) schemes affected the simulation of chemical species. Their study indicated that the Yonsei University non-local diffusion PBL scheme has given better results for meteorological variables than the Mellor-Yamada-Janjic PBL scheme for the ozone predictions. Jiang [<xref ref-type="bibr" rid="B36-atmosphere-03-00288">36</xref>] studied a continuous photochemical pollution episode in Hong Kong using WRF/Chem to examine the meteorological processes contributing to the formation of high ozone and reported that the northerly air stream associated with high temperatures, stable boundary layer and clear sky conditions favored the high ozone formation in Hong Kong city. De Foy [<xref ref-type="bibr" rid="B37-atmosphere-03-00288">37</xref>] evaluated the WRF model for the complex wind flows in the Mexico City basin area with data from field campaigns using statistical techniques, cluster analysis of flow trajectories and concentration measurements. Their study of ozone showed the influence of the local and regional scale circulations and their modulation by the synoptic–scale flow patterns to govern the short-range transport in the Mexico City region. Tie [<xref ref-type="bibr" rid="B38-atmosphere-03-00288">38</xref>] studied the performance of the WRF/Chem for the simulation of ozone and its precursors in the Mexico City region using <italic>in situ</italic> aircraft measurements of chemical species. They reported that the model was able to capture the timing and location of the ozone concentrations, their association with city plumes and that the model underestimated the ozone mixing ratios by about 0–25%. Zhang [<xref ref-type="bibr" rid="B39-atmosphere-03-00288">39</xref>] studied the air quality over Mexico City using WRF/Chem and reported that the model performs much better during daytime than nighttime for both chemical species and meteorological variables and different combinations of the available PBL and land surface schemes did not reduce the errors. </p>
      <p>Chatani and Sudo [<xref ref-type="bibr" rid="B40-atmosphere-03-00288">40</xref>] observed and analyzed the seasonal variation of ozone concentration in the Japan domain by using the WRF/Chem, CHASER model with monitoring station data during 1996–2005. They tried to evaluate the performance of the WRF/Chem, CHASER model with monitoring data during this period. Masanori [<xref ref-type="bibr" rid="B41-atmosphere-03-00288">41</xref>] evaluated vertical ozone profiles simulated by WRF/Chem using Lidar observation over the Kanto region of Japan on 27–29 July and 16–21 August 2005. Kurokawa [<xref ref-type="bibr" rid="B42-atmosphere-03-00288">42</xref>] showed the influence of meteorological variability on interannual variations of the springtime boundary layer ozone over Japan between 1981–2005. Kurokawa [<xref ref-type="bibr" rid="B43-atmosphere-03-00288">43</xref>] depicted an analysis of episodic pollution of photochemical ozone during 8–9 May 2007 over Japan using the nesting RAMS/CMAQ modeling system. Hayasaki [<xref ref-type="bibr" rid="B44-atmosphere-03-00288">44</xref>] described Episodic pollution of photochemical ozone during 8–9 May 2007 over Japan. Saikawa [<xref ref-type="bibr" rid="B45-atmosphere-03-00288">45</xref>] analyzed the impact of China’s vehicle emissions on regional air quality in 2000 and 2020. It is evident that the early research work on ozone simulation by WRF/Chem in the Japan domain did not show any time series ozone concentration with observation data to find out an ozone episode. However, the use of WRF/Chem to predict the ozone concentration in Japan domain is very rare. </p>
      <p>In this study an attempt has been made to examine the evolution of surface ozone and other precursor emissions like NOx over the Coastal Areas of the Sea of Japan using WRF/Chem, an online chemistry model. The performance of WRF/Chem in the simulation of ozone concentration distribution in the region that have occurred during the spring (middle of March) condition and the results from this study could provide useful information about ozone formative meteorological processes to air quality regulatory agencies and health administrators. The spring climate in the study region is characterized with strong land–ocean thermal gradients and the resulting mesoscale sea breeze circulation. The concentration distribution of ozone in 14–16 March 2008 during spring with sufficient observations was selected to assess the model performance.</p>
    </sec>
    <sec>
      <title>2. Model Description</title>
      <p>The Weather Research and Forecasting (WRF) model is a mesoscale numerical weather prediction system designed to serve both operational forecasting and atmospheric research needs. The development of the WRF model has been a collaborative partnership, principally among the National Center for Atmospheric Research (NCAR), the National Oceanic and Atmospheric Administration (NOAA), the National Center for Environmental Prediction (NCEP), the Forecast Systems Laboratory (FSL), the Air Force Weather Agency (AFWA), the Naval Research Laboratory, Oklahoma University, and the Federal Aviation Administration (FAA). The WRF model is a fully compressible and Euler nonhydrostatic model. It calculates winds (u, v, and w), the perturbation potential temperature, the perturbation geopotential, and the perturbation surface pressure of dry air. It can also optionally output other variables, including turbulent kinetic energy, the water vapor mixing ratio, the rain/snow mixing ratio, and the cloud water/ice mixing ratio. The model physics include bulk schemes, mixed-phase physics of cloud-resolving modeling, and multi-layer land surface models ranging from a simple thermal model to full vegetation and soil moisture models. The full vegetation and soil moisture land surface models can include snow cover and sea ice, turbulent kinetic energy predictions or non-local K schemes for planetary boundary layer calculations, long wave and shortwave schemes with multiple spectral bands, and a simple shortwave model. On the other hand, the WRF Preprocessing System (WPS) is used to prepare a domain (region of the earth) for WRF. The WPS consists of three independent programs<italic>:</italic> geogrid, ungrib, and metgrid. The purpose of geogrid is to define the simulation domains and interpolate various terrestrial data sets to the model grids. The ungrib program reads GRIB files, degribs the data, and writes the data in a simple format, called the intermediate format. The metgrid program horizontally interpolates the intermediate-format meteorological data that are extracted by the ungrib program into the simulation domains defined by the geogrid program. A detailed description of the WRF and WPS model can be found on the WRF website [<xref ref-type="bibr" rid="B26-atmosphere-03-00288">26</xref>]. </p>
      <p>In addition to a dynamical calculation, a chemical model (WRF/Chem) is fully (on-line) coupled with the WRF model. A detailed description of WRF/Chem is given by Grell <italic>et al.</italic> [<xref ref-type="bibr" rid="B26-atmosphere-03-00288">26</xref>]. The version of the model (version 3.3) used in the present study includes simultaneous calculations of dynamical parameters (e.g., wind, temperature, boundary layer, and clouds), transport (advective, convective, and diffusive), dry deposition [<xref ref-type="bibr" rid="B46-atmosphere-03-00288">46</xref>], gas phase chemistry, radiation and photolysis rates [<xref ref-type="bibr" rid="B47-atmosphere-03-00288">47</xref>,<xref ref-type="bibr" rid="B48-atmosphere-03-00288">48</xref>], and surface emissions, including online calculations of biogenic emissions. Ozone chemistry is represented in the model by a modified Regional Acid Deposition Model version 2 (RADM2) gas-phase chemical mechanism [<xref ref-type="bibr" rid="B49-atmosphere-03-00288">49</xref>], which includes 158 reactions among 36 species, in conjunction with the Secondary Organic Aerosol Model (MADE/SORGAM) of aqueous reactions [<xref ref-type="bibr" rid="B50-atmosphere-03-00288">50</xref>].</p>
    </sec>
    <sec>
      <title>3. Simulation Method</title>
      <sec>
        <title>3.1. Model Settings and Initialization</title>
        <p>The WRF/Chem simulation in this study simulated the coastal areas of the Sea of Japan (latitude 31.4°N–45.0°N and longitude 129.3°E–146.2°E), which is a marginal sea of the western Pacific Ocean, bordered by Japan, the Korean Peninsula and Russia, and is referred to in South Korea as the East Sea [<xref ref-type="bibr" rid="B51-atmosphere-03-00288">51</xref>,<xref ref-type="bibr" rid="B52-atmosphere-03-00288">52</xref>]. </p>
        <fig id="atmosphere-03-00288-f001" position="anchor">
          <label>Figure 1</label>
          <caption>
            <p>The nesting domain setting of the model.</p>
          </caption>
          <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g001.tif"/>
        </fig>
        <p>In this study, the model was used to simulate medium-scale and regional circulation influenced by the complex terrain within and around the coastal areas of the Sea of Japan during the period from 00:00 UTC (Coordinated Universal Time) [<xref ref-type="bibr" rid="B53-atmosphere-03-00288">53</xref>] on 14 March 2008 to 00:00 on 16 March 2008; Japan Standard Time (JST) [<xref ref-type="bibr" rid="B54-atmosphere-03-00288">54</xref>] is the standard time zone of Japan and is 9 hours ahead of UTC. One nesting domain was defined using the Lambert projection, which can be observed in <xref ref-type="fig" rid="atmosphere-03-00288-f001">Figure 1</xref>. The domain covers the coastal area of the entire Japanese side and a part of the Korean side of the Sea of Japan, with the center point at latitude 38.5°N, longitude 137.60°E. The domain settings and configuration options are shown in <xref ref-type="table" rid="atmosphere-03-00288-t001">Table 1</xref>. The initial and lateral boundary conditions for the meteorology component are taken from the National Centers for Environmental Prediction (NCEP) Final (FNL) Global Analysis data available at 1° resolution and at six hour intervals. The ideal concentration profiles [<xref ref-type="bibr" rid="B55-atmosphere-03-00288">55</xref>] were used as initial and boundary conditions of the chemical species. A total of 35 vertical levels with 10 levels in the lower atmospheric region (below 800 mbar) were considered in the model. </p>
        <table-wrap id="atmosphere-03-00288-t001" position="anchor">
          <object-id pub-id-type="pii">atmosphere-03-00288-t001_Table 1</object-id>
          <label>Table 1</label>
          <caption>
            <p>WRF/Chem model domain settings and configuration options. </p>
          </caption>
          <table>
            <tbody>
              <tr>
                <td align="left" valign="middle">
                  <bold>Horizontal grid (</bold>
                  <bold>x, </bold>
                  <bold>y)</bold>
                </td>
                <td align="left" valign="middle">75, 70</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Grid spacing</bold>
                </td>
                <td align="left" valign="middle">22 km </td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Meteorological time step</bold>
                </td>
                <td align="left" valign="middle">180 s</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Chemical time step</bold>
                </td>
                <td align="left" valign="middle">180 s</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Microphysics</bold>
                </td>
                <td align="left" valign="middle">WSM3-class simple ice scheme [<xref ref-type="bibr" rid="B56-atmosphere-03-00288">56</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Advection scheme</bold>
                </td>
                <td align="left" valign="middle">5th horizontal/3rd vertical [<xref ref-type="bibr" rid="B57-atmosphere-03-00288">57</xref>,<xref ref-type="bibr" rid="B58-atmosphere-03-00288">58</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Long wave radiation</bold>
                </td>
                <td align="left" valign="middle">RRTM [<xref ref-type="bibr" rid="B59-atmosphere-03-00288">59</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Shortwave radiation</bold>
                </td>
                <td align="left" valign="middle">GODDARD [<xref ref-type="bibr" rid="B60-atmosphere-03-00288">60</xref>,<xref ref-type="bibr" rid="B61-atmosphere-03-00288">61</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Surface layer</bold>
                </td>
                <td align="left" valign="middle">Moni-Obukhov (Janjic Eta) [<xref ref-type="bibr" rid="B62-atmosphere-03-00288">62</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Land surface model</bold>
                </td>
                <td align="left" valign="middle">NOAH [<xref ref-type="bibr" rid="B63-atmosphere-03-00288">63</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Boundary layer</bold>
                </td>
                <td align="left" valign="middle">Mellor-Yamada-Janjic TKE [<xref ref-type="bibr" rid="B64-atmosphere-03-00288">64</xref>,<xref ref-type="bibr" rid="B65-atmosphere-03-00288">65</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Cumulus parameterization</bold>
                </td>
                <td align="left" valign="middle">Grell-Devenyi ensemble scheme [<xref ref-type="bibr" rid="B66-atmosphere-03-00288">66</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Chemistry option</bold>
                </td>
                <td align="left" valign="middle">RADM2 [<xref ref-type="bibr" rid="B67-atmosphere-03-00288">67</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Dry deposition</bold>
                </td>
                <td align="left" valign="middle">Wesley, 1989 [<xref ref-type="bibr" rid="B68-atmosphere-03-00288">68</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Biogenic emissions</bold>
                </td>
                <td align="left" valign="middle">Guenther scheme [<xref ref-type="bibr" rid="B69-atmosphere-03-00288">69</xref>,<xref ref-type="bibr" rid="B70-atmosphere-03-00288">70</xref>] </td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Photolysis option</bold>
                </td>
                <td align="left" valign="middle">Madronich, 1987 [<xref ref-type="bibr" rid="B71-atmosphere-03-00288">71</xref>]</td>
              </tr>
              <tr>
                <td align="left" valign="middle">
                  <bold>Aerosol option</bold>
                </td>
                <td align="left" valign="middle">MADE/SORGAM [<xref ref-type="bibr" rid="B72-atmosphere-03-00288">72</xref>]</td>
              </tr>
            </tbody>
          </table>
        </table-wrap>
        <p>Models will have spin-up time; that is the time needed to adjust to forcing. In weather prediction, the model physics will spin up a velocity field in balance with the density field, even in the absence of forcing. As forcing is applied, the velocity field will respond to it initially with transient flows that may not be realistic although continuously changing. For this reason, the model simulation was started from 00:00 UTC on 6 March to 00:00 UTC on 16 March, where the first 8 days simulation results were not used in this study. The model is executed with 8 days spin-up to achieve stabilized results of this study.</p>
        <p>The chemistry is initialized with idealized profiles, with the anthropogenic emissions data taken from the global emission data “prep_chem_sources” described in <xref ref-type="sec" rid="sec3dot2-atmosphere-03-00288">Section 3.2</xref>. The data are interpolated to model grids using the emissions processing program available with WRF/Chem. The biogenic emissions are calculated using the scheme of Guenther <italic>et al.</italic> [<xref ref-type="bibr" rid="B69-atmosphere-03-00288">69</xref>,<xref ref-type="bibr" rid="B70-atmosphere-03-00288">70</xref>]. WRF/Chem simulates concurrently the meteorological conditions and chemistry of atmospheric species from emission, through transport and a variety of chemical reactions, to the removal by wet or dry deposition. The Weather Research and Forecasting model [<xref ref-type="bibr" rid="B25-atmosphere-03-00288">25</xref>] serves as a meteorological module for WRF/Chem. In this study, cloud and the precipitation formation process were simulated by the WSM3-class simple ice scheme [<xref ref-type="bibr" rid="B56-atmosphere-03-00288">56</xref>] that allows for mixed phase processes and the coexistence of supercooled water and ice. To consider the impact of cumulus convection, despite convection only occurring on a few days during 14–16 March, the cumulus ensemble approach had been used [<xref ref-type="bibr" rid="B62-atmosphere-03-00288">62</xref>]. Shortwave radiation was determined by the Goddard two stream multi-band scheme [<xref ref-type="bibr" rid="B60-atmosphere-03-00288">60</xref>,<xref ref-type="bibr" rid="B61-atmosphere-03-00288">61</xref>] and RRTM scheme [<xref ref-type="bibr" rid="B59-atmosphere-03-00288">59</xref>], respectively, that considers, among other things, cloud effects and ice-fog. Long wave radiation was treated with the Rapid Radiative Transfer Model [<xref ref-type="bibr" rid="B59-atmosphere-03-00288">59</xref>], that considers multiple spectral bands, trace gases, and microphysical species. Turbulent processes in the atmospheric boundary layer were determined using the Mellor-Yamada-Janjic TKE scheme [<xref ref-type="bibr" rid="B64-atmosphere-03-00288">64</xref>,<xref ref-type="bibr" rid="B65-atmosphere-03-00288">65</xref>]. However, the Monin-Obukhov similarity hypothesis was used to describe the turbulent processes in the atmospheric surface layer, where Zilitinkevich’s thermal roughness length concept was considered for the underlying viscous sublayer [<xref ref-type="bibr" rid="B65-atmosphere-03-00288">65</xref>]. The exchange of heat and moisture in the land atmosphere interface was described by the Noah land surface model (NOAH) [<xref ref-type="bibr" rid="B63-atmosphere-03-00288">63</xref>] which calculates soil temperature and moisture states, including frozen soil physics. Its multi-layer snow model and one-layer vegetation model considers snow and vegetation processes, respectively. The chemistry options used in the model are the Regional Acid Deposition Model version 2 (RADM2) gas-phase chemical mechanism [<xref ref-type="bibr" rid="B67-atmosphere-03-00288">67</xref>] and Madronich photolysis scheme [<xref ref-type="bibr" rid="B71-atmosphere-03-00288">71</xref>]. For the present study, the MADE/SORGAM [<xref ref-type="bibr" rid="B72-atmosphere-03-00288">72</xref>] aerosol module is included. The chemistry was initialized with idealized profiles. The various options used in the model are given in <xref ref-type="table" rid="atmosphere-03-00288-t001">Table 1</xref>. </p>
      </sec>
      <sec id="sec3dot2-atmosphere-03-00288">
        <title>3.2. Data Acquisition and Pre-Processing of Emissions</title>
        <p>The linkages in the formation and transport of pollution between the local, regional and global scales are receiving increasing recognition and a variety of atmospheric chemistry models address these aspects. This modeling effort puts new demands on the emission inventories that are used as input to these models. The inventories need to be accurate at the local scale yet also cover the entire globe with a consistent approach.</p>
        <p>The GEIA (Global Emissions Inventory Activity)/ACCENT (European Network of Excellence on Atmospheric Composition Change) data portal is a cooperative project that provides surface emission data (total and gridded data) for the main emission categories (total anthropogenic, total biomass burning, biogenic, and oceans) at global or regional scales from several inventories (e.g., RETRO, POET, EDGARFT2000, GFEDv2, and GEIA v1) (<xref ref-type="table" rid="atmosphere-03-00288-t002">Table 2</xref>).</p>
        <p>The use of a global emissions data set has recently been added to the WRF/Chem model options. The global emissions data are from the REanalysis of the TROpospheric (RETRO) chemical composition data collected over the past 40 years and the Emission Database for Global Atmospheric Research (EDGAR). Both RETRO and EDGAR provide global annual emission data of several greenhouse gases (e.g., CO<sub>2</sub>, CH<sub>4</sub> and N<sub>2</sub>O) as well as some precursor gases on a 0.5° × 0.5° (RETRO) or a 1° × 1° (EDGAR) grid. In the present study, a simple grid-mapping program was used in the WRF/Chem model. This program, called “prep-chem-sources” for global emission data (dust, sea salt, biomass burning), was developed at CPTEC, Brazil and is available to WRF/Chem model users. The “prep-chem-sources” is an emission data generator package to provide gridded emission fluxes (kg/m<sup>2</sup>) which assimilates the inventory works (<xref ref-type="table" rid="atmosphere-03-00288-t002">Table 2</xref>) of biomass burning and wildfire emission data from anthropogenic and biogenic sources [<xref ref-type="bibr" rid="B73-atmosphere-03-00288">73</xref>,<xref ref-type="bibr" rid="B74-atmosphere-03-00288">74</xref>]. </p>
        <table-wrap id="atmosphere-03-00288-t002" position="anchor">
          <object-id pub-id-type="pii">atmosphere-03-00288-t002_Table 2</object-id>
          <label>Table 2</label>
          <caption>
            <p>Global inventories offered by the GEIA/ACCENT data portal. </p>
          </caption>
          <table>
  <thead>
              <tr>
                <th align="center" valign="top">Inventory</th>
                <th align="center" valign="top">Categories </th>
                <th align="center" valign="top">Spatial resolution </th>
                <th align="center" valign="top">Temporal resolution </th>
              </tr>
</thead>
            <tbody>
              <tr>
                <td align="center" valign="top">POET [<xref ref-type="bibr" rid="B75-atmosphere-03-00288">75</xref>,<xref ref-type="bibr" rid="B76-atmosphere-03-00288">76</xref>]</td>
                <td align="center" valign="top">Anthropogenic biomass burning (natural) </td>
                <td align="center" valign="top">1 × 1</td>
                <td align="center" valign="top">Annual (anthro.), monthly (biom. burn.), monthly (natural) </td>
              </tr>
              <tr>
                <td align="center" valign="top">RETRO [<xref ref-type="bibr" rid="B77-atmosphere-03-00288">77</xref>]</td>
                <td align="center" valign="top">Anthropogenic biomass burning </td>
                <td align="center" valign="top">0.5 × 0.5</td>
                <td align="center" valign="top">Monthly </td>
              </tr>
              <tr>
                <td align="center" valign="top">EDGAR [<xref ref-type="bibr" rid="B78-atmosphere-03-00288">78</xref>
                ,<xref ref-type="bibr" rid="B79-atmosphere-03-00288">79</xref>,<xref ref-type="bibr" rid="B80-atmosphere-03-00288">80</xref>]</td>
                <td align="center" valign="top">Anthropogenic biomass burning </td>
                <td align="center" valign="top">1 × 1</td>
                <td align="center" valign="top">Annual </td>
              </tr>
              <tr>
                <td align="center" valign="top">GFED v2 [<xref ref-type="bibr" rid="B81-atmosphere-03-00288">81</xref>,<xref ref-type="bibr" rid="B82-atmosphere-03-00288">82</xref>]</td>
                <td align="center" valign="top">Biomass burning/wildfire emission </td>
                <td align="center" valign="top">1 × 1</td>
                <td align="center" valign="top">Monthly </td>
              </tr>
              <tr>
                <td align="center" valign="top">CO<sub>2</sub> [<xref ref-type="bibr" rid="B83-atmosphere-03-00288">83</xref>] </td>
                <td align="center" valign="top">Anthropogenic </td>
                <td align="center" valign="top">1 × 1</td>
                <td align="center" valign="top">Annual </td>
              </tr>
              <tr>
                <td align="center" valign="top">GEIA v.1 [<xref ref-type="bibr" rid="B79-atmosphere-03-00288">79</xref>]</td>
                <td align="center" valign="top">Anthropogenic biomass burning naturally </td>
                <td align="center" valign="top">1 × 1</td>
                <td align="center" valign="top">Annual + monthly for NOx, SO<sub>2</sub>, and nat. VOC </td>
              </tr>
            </tbody>
          </table>
        </table-wrap>
      </sec>
    </sec>
    <sec>
      <title>4. Observation of Ozone Concentrations over Japan</title>
      <p>Annual and monthly pollutant concentrations observed at monitoring stations operated by Japanese local governments and the Japanese Meteorological Agency [<xref ref-type="bibr" rid="B84-atmosphere-03-00288">84</xref>,<xref ref-type="bibr" rid="B85-atmosphere-03-00288">85</xref>] (JMA) are available on the website [<xref ref-type="bibr" rid="B86-atmosphere-03-00288">86</xref>]. This site contains data that has been collected since 1970, which are valuable for evaluating the long-term or short-term trends of pollutant concentrations in Japan. Based on this database, the Japanese government has annually reported surface ozone levels in Japan, with the long-term trend showing that these ozone levels have increased over time [<xref ref-type="bibr" rid="B87-atmosphere-03-00288">87</xref>]. The first observation data set of 1,045 monitoring stations that continued to monitor photochemical oxidants between 1996 and 2008 were used in this study to investigate the pattern of ozone concentrations in March and to compare it with the simulation results. Most of the monitoring stations are located in populated coastal areas in Japan, as shown in the left map of <xref ref-type="fig" rid="atmosphere-03-00288-f002">Figure 2</xref>, because these stations are operated primarily to ensure adherence to environmental quality standards (EQSs). This database has been compiled from surface ozone concentrations recorded as daytime and nighttime averages and from the maximum concentrations of photochemical oxidants. Daytime corresponds to a twelve-hour period from 06:00 a.m. to 06:00 p.m. and time corresponds to a twelve-hour period from 06:00 p.m. to 06:00 a.m. of Japan Standard Time. Photochemical oxidants include other trace oxidants such as H<sub>2</sub>O<sub>2</sub> and peroxyacyl nitrates (PANs), but instruments that detect only ozone have been officially approved by the Japanese government because differences in concentrations of photochemical oxidants and ozone are expected to be small [<xref ref-type="bibr" rid="B40-atmosphere-03-00288">40</xref>]. Therefore, differences in concentrations between ozone and photochemical oxidants can be ignored for monthly variations in observed surface ozone concentrations. Additionally, the second observation data set of the Acid Deposition Monitoring Network in East Asia (EANET) was prepared to compare with the WRF/Chem simulation results, whereas the EANET operates monitoring stations located primarily in remote areas. Observed concentrations of surface ozone at 10 EANET monitoring stations in Japan were used to validate the performance of the simulation in Japanese background areas from 2000–2008. The locations of EANET monitoring stations are shown in the middle map of <xref ref-type="fig" rid="atmosphere-03-00288-f003">Figure 3</xref>. They are scattered in remote areas throughout Japan. </p>
      <fig id="atmosphere-03-00288-f002" position="anchor">
        <label>Figure 2</label>
        <caption>
          <p>The locations of the monitoring stations in a populated area and of the EANET monitoring stations in Japan that were used in this study [<xref ref-type="bibr" rid="B40-atmosphere-03-00288">40</xref>].</p>
        </caption>
        <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g002.tif"/>
      </fig>
      <p>The concentrations of surface ozone at EANET monitoring stations in Japan show seasonal variations, with low values in the summer (August) and higher values in the spring (Middle of March). The average ozone concentrations in March at different EANET monitoring stations were found to be approximately 37 to 55 ppb, compared to approximately 33.5 ppb in populated Japanese areas. <xref ref-type="fig" rid="atmosphere-03-00288-f003">Figure 3</xref> shows monthly variations of observed surface ozone concentrations, averaged over 2000–2008 at each of 10 EANET monitoring stations. The red line in <xref ref-type="fig" rid="atmosphere-03-00288-f003">Figure 3</xref> shows monthly variations of observed concentrations of surface ozone above populated Japanese areas averaged over 1996–2008. </p>
      <fig id="atmosphere-03-00288-f003" position="anchor">
        <label>Figure 3</label>
        <caption>
          <p>Monthly variations of observed concentrations of ozone averaged over 2000–2008 at each of 10 EANET monitoring stations. The red line shows monthly variations of observed concentrations of ozone averaged over 1996–2008 above populated Japanese areas.</p>
        </caption>
        <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g003.tif"/>
      </fig>
      <p>The two observation data sets have shown that there have been air pollution episodes in the middle of March at most of the monitoring stations, in which the concentrations of ozone, nitrogen dioxide (NOx), volatile organic compounds (VOCs) and particulate matter (PM) are considerably high, hence causing lower visibility [<xref ref-type="bibr" rid="B86-atmosphere-03-00288">86</xref>]. In this paper, a serious and continuous photochemical pollution episode in Japan during the anti-cyclone of 14–16 March 2008 was investigated using the WRF/Chem. Chatani and Sudo [<xref ref-type="bibr" rid="B40-atmosphere-03-00288">40</xref>] observed and analyzed the ozone and other trace gas concentrations, as well as the corresponding weather conditions in this heavy-pollution episode. Our aim was to further understand the physical and chemical mechanisms of this episode by use of the new generation air quality model WRF/Chem. In <xref ref-type="sec" rid="sec6dot2-atmosphere-03-00288">Section 6.2</xref>, the simulation results were carefully compared with observation data and analyzed with the focus on local chemical production and regional transport.</p>
    </sec>
    <sec>
      <title>5. Characteristics of Ozone Episodes</title>
      <p>The past several year standard ozone average of two different data sets of different monitoring stations (<xref ref-type="fig" rid="atmosphere-03-00288-f003">Figure 3</xref>) shows an average monthly variation of observed ozone concentrations. From analysis of air pollution records of the last few years, the monthly average concentration of ozone is higher in March in most of the EANET monitoring stations and the monitoring stations in the populated area. <xref ref-type="fig" rid="atmosphere-03-00288-f003">Figure 3</xref> was prepared by the data set of monthly average ozone concentrations from 2000 to 2008 of 10 EANET monitoring stations and of the data set of monthly average concentration from 1996 to 2008 for the 1,045 monitoring stations in the populated area. Due to the trends of higher ozone concentration in March in Japan [<xref ref-type="bibr" rid="B40-atmosphere-03-00288">40</xref>], an attempt has been taken to examine the evolution of surface ozone from 14 to 16 March 2008 by WRF/Chem simulation. The highest ozone concentration occurred from 14 to 16 March 2008, lasting for 2–3 days. These monitoring stations are Rishiri, Tappi, Happo, and Banryuko and are representative of the coastal region; Ijirako and Yusuhara are the representative of the inland area; Sado, Oki, Ogasawara, Hedomisaki are located in the island. Prior to the episode, the surface ozone concentrations were low on 13 March (about 50–60 ppb) and exceeded to 60 ppb at the monitoring stations Rishiri, Tappi and Oki on March 14 and 15 and reached 72 ppb on 14 March at Tappi. The peak higher value of ozone concentration was identified 72 ppb on March 14 at Tappi, which could be called an episode (<xref ref-type="fig" rid="atmosphere-03-00288-f004">Figure 4</xref>). <xref ref-type="fig" rid="atmosphere-03-00288-f004">Figure 4</xref> shows time series (3 hours interval) zone concentrations from 00:00 UTC on 1 March to 00:00 UTC on 31 March of 2008. The black circle on <xref ref-type="fig" rid="atmosphere-03-00288-f004">Figure 4</xref> shows the peak ozone concentration (72 ppb). Although these periods do not characterize a very severe ozone episode, they are considered important as the hourly average ozone values at 2 EANET monitoring stations exceeded 60 ppb, a threshold which can seriously affect people suffering from respiratory deficiencies [<xref ref-type="bibr" rid="B88-atmosphere-03-00288">88</xref>,<xref ref-type="bibr" rid="B89-atmosphere-03-00288">89</xref>] and therefore indicate moderate severe ozone pollution for human health. However, the hourly average ozone concentration at all EANET monitoring stations exceeded 50 ppb, which exceeded the air quality standard of Japan for hourly average ozone concentrations [<xref ref-type="bibr" rid="B90-atmosphere-03-00288">90</xref>]. </p>
      <fig id="atmosphere-03-00288-f004" position="anchor">
        <label>Figure 4</label>
        <caption>
          <p>Time series (3 hours interval) zone concentrations from 00:00 UTC on 1 March to 00:00 UTC on 31 March of 2008 at Tappi, Rishiri, Oki. The black circle shows the peak ozone concentration (72 ppb) on 14 March at Tappi, which could be called an episode.</p>
        </caption>
        <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g004.tif"/>
      </fig>
    </sec>
    <sec>
      <title>6. Modeling Results and Discussion</title>
      <sec>
        <title>6.1. Ozone Concentrations Based on WRF/Chem Simulations</title>
        <p><xref ref-type="fig" rid="atmosphere-03-00288-f005">Figure 5</xref>, which is the composite image from the modeling results of single nesting domains, illustrates the spatial distribution of surface ozone concentrations averaged from 00:00 UTC on 14 March (9:00 a.m. Japanese Standard Time) to 00:00 UTC on 16 March 2008. To display the time evolution of the simulated ozone concentrations, <xref ref-type="fig" rid="atmosphere-03-00288-f005">Figure 5</xref> shows the structure of the ozone ﬁeld from 03:00 UTC on 14 March to 00:00 UTC on 16 March 2008 at 1,000 mbar atmospheric pressure levels (vertical level z = 1) by using the WRF/Chem post-processing tools Grid Analysis and Display System (GrADS). This level was chosen to emphasize the transport processes across the coastal areas of the Sea of Japan relative to surface processes. However, most of the EANET monitoring stations are located in the mountainous area about 80–120 meters above ground level. In the present study, the WRF/Chem model was used to simulate the spatial and temporal variations of surface ozone and its precursor pollutants NOx over Coastal Areas of the Sea of Japan. Ozone in the high concentration zone was calculated mainly over the Sea of Japan oceanic regions on 14 March and was found to be 40 to 45 ppb, as shown in <xref ref-type="fig" rid="atmosphere-03-00288-f005">Figure 5</xref>. At 09:00 UTC on 14 March, ozone started to build up in the boundary layer with concentrations of 44 ppb near the Korean Peninsula. An anticyclone [<xref ref-type="bibr" rid="B91-atmosphere-03-00288">91</xref>] induced the high-ozone region to rotate clockwise from the Korean Peninsula (09:00 UTC on 14 March) to the southwestern part of the Honshu island of Japan (15:00 UTC on 14 March) and then to the Pacific Ocean (06:00 UTC on 15 March). Due to the long lifetime of ozone (about a week) in the troposphere, the distribution of ozone concentrations was greatly influenced by the airflow of the anticyclone. According to <xref ref-type="fig" rid="atmosphere-03-00288-f005">Figure 5</xref>, cyclonic winds (anticlockwise rotation) are noted at 138.4°E, 41.6°N. After 00:00 UTC on 15 March, ozone concentrations (50 ppb) were found to be highest in the southern part of Honshu. Another small area of high ozone concentrations built up near the coastal area of the eastern part of Honshu (00:00 UTC on 14 March), which stagnated for several hours and then moved to the Pacific Ocean; the entire polluted air mass was pushed eastwards by a cold front coming from the northwest [<xref ref-type="bibr" rid="B92-atmosphere-03-00288">92</xref>]. In addition, the level of primary pollutants, such as NOx, was relatively lower over the ocean, resulting in a lower consumption of ozone; thus, the highest concentrations of ozone were found over the ocean. An important fact revealed by the simulated results was that ozone levels did not reach extreme values (70–90 ppb) [<xref ref-type="bibr" rid="B93-atmosphere-03-00288">93</xref>]. The Air Quality Management Division of the Ministry of the Environment in Japan selected the maximum level of the air quality standard for ozone, which is 60 ppb [<xref ref-type="bibr" rid="B90-atmosphere-03-00288">90</xref>]. In this study, the range of atmospheric concentrations of ozone over the coastal areas of the Sea of Japan were calculated using the WRF/Chem model to be 30–55 ppb during the simulation period, which was lower than the Japanese air quality standard for ozone. </p>
        <fig id="atmosphere-03-00288-f005" position="anchor">
          <label>Figure 5</label>
          <caption>
            <p>Ozone concentrations (ppb) over the coastal areas of the Sea of Japan from 03:00 UTC on 14 March to 00:00 UTC on 16 March (3 hours interval), 2008, based on the simulation results of the WRF/Chem model.</p>
          </caption>
          <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g005.tif"/>
        </fig>
      </sec>
      <sec id="sec6dot2-atmosphere-03-00288">
        <title>6.2. Comparison of WRF/Chem Simulation Results with Monitoring Data</title>
        <p>The time series of model-simulated ozone for the 48 hour period (3 hours interval) from 00:00 UTC on March to 00:00 UTC on 16 March of 2008 corresponding to the observation site are shown in <xref ref-type="fig" rid="atmosphere-03-00288-f006">Figure 6</xref>. In this study, ozone concentration data at the location of EANET monitoring stations calculated by the WRF/Chem were taken at 1,000 mbar atmospheric pressure levels (vertical level z = 1). On the other hand, average ozone concentration data at the location of the Japanese populated area were extracted at the ground level from the NetCDF files of WRF/Chem output, because these monitoring stations are located at the ground level of urbanized areas in Japan. This time series shows that the surface ozone gradually decreased from 18:00 UTC onwards, reaching a minimum level around midnight, and stayed nearly constant until dawn, and gradually increased from dawn to noon, reaching a maximum around 12:00 UTC. It is noted that the model simulated a maximum of 50 ppb as compared to an observational maximum of 70 ppb. </p>
        <p><xref ref-type="fig" rid="atmosphere-03-00288-f006">Figure 6</xref> shows three hours average ozone concentrations at seven EANET monitoring station sites and the monitoring stations in the populated area in Japan during this period. The ozone concentrations were relatively low at night time (about 15–40 ppb), it rose during daytime and reached the highest ozone concentration (about 55–70 ppb). <xref ref-type="fig" rid="atmosphere-03-00288-f006">Figure 6</xref> gives the hourly average concentrations of ozone observed at the seven EANET monitoring station sites as well as the monitoring stations in the populated area in Japan compared with WRF/Chem simulation. The surface ozone levels (hourly average value) exceeded 50 ppb in most of the EANET monitoring stations in Japan. The time series of ozone concentrations (3 hours average) during the above episodes at 7 EANET monitoring stations and monitoring stations in the populated area are shown in <xref ref-type="fig" rid="atmosphere-03-00288-f006">Figure 6</xref>.</p>
        <p><xref ref-type="fig" rid="atmosphere-03-00288-f006">Figure 6</xref> shows the accuracy of the WRF/Chem simulation results compared with the observation data of some monitoring stations. Although the ﬁne resolution afforded by the WRF/Chem model effectively titrates ambient ozone and moves the simulated concentrations of surface ozone closer to the observed values, the WRF/Chem model underestimated surface ozone concentrations in March over most of the EANET monitoring stations in Japan and overestimated concentrations over the populated areas of Japan. <xref ref-type="fig" rid="atmosphere-03-00288-f006">Figure 6</xref> shows a reasonable agreement with the monitoring data with respect to predicting localized atmospheric ozone concentrations. The absolute values of ozone concentrations were comparable, but seasonal variations were different between the observed and simulated surface ozone concentrations. Therefore, it is difficult to compare the WRF/Chem simulated ozone concentrations in March with the observed data. Concentrations of observed surface ozone were highest in the spring and lowest in the summer at all stations. Second peaks in autumn were found at most of the stations. In March, the observed average ozone concentrations were found to range from approximately 25 to 70 ppb, whereas the average ozone concentrations calculated by WRF/Chem ranged from 30 to 50 ppb for the EANET monitoring stations.</p>
        <fig id="atmosphere-03-00288-f006" position="anchor">
          <label>Figure 6</label>
          <caption>
            <p>Comparison of time series (3 hours interval) zone concentrations from 00:00 UTC on 14 March to 00:00 UTC on 16 March of 2008, between the data of different monitoring stations and the WRF/Chem simulation results. The red line represents WRF/Chem simulation result and the blue line represents observation data.</p>
          </caption>
          <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g006.tif"/>
        </fig>
      </sec>
      <sec>
        <title>6.3. Local Meteorological Characteristics</title>
        <p>Large-scale winds define the general wind regime, and local winds influence the convergence zones. Thus, regional circulation plays an important role in the dispersion of pollutants [<xref ref-type="bibr" rid="B94-atmosphere-03-00288">94</xref>]. Many studies have shown that wind and weather conditions are one of the most important factors determining the formation of photochemical pollution. Other factors include, for example, a stable boundary layer, strong solar radiation, clear sky, weak wind, high temperature, and low humidity. <xref ref-type="fig" rid="atmosphere-03-00288-f007">Figure 7</xref> shows the temporal variations of the simulated meteorological conditions throughout the entire domain. In the winter season, the air temperatures were lower, with daily maximum temperatures below 6 °C (<xref ref-type="fig" rid="atmosphere-03-00288-f007">Figure 7</xref>) in March, and the daily minimum relative humidity was below 75% in general when the photochemical pollution was weak. <xref ref-type="fig" rid="atmosphere-03-00288-f007">Figure 7</xref> (15:00 UTC on 14 March) shows the strong winds that occurred at night in the coastal areas of the Sea of Japan. This illustrates that photochemical reactions may have played an important role in the studied episode. It should be noted that the wind speed was relatively strong in the northern part of Japan and that the temperature was lowered due to the influence of the anticyclone, but the ozone peaks were slightly higher in the southern part of Japan (<xref ref-type="fig" rid="atmosphere-03-00288-f005">Figure 5</xref>). With a view to ascertaining the possible sources of the pollutants that contribute to ozone production, eight back trajectories (<xref ref-type="fig" rid="atmosphere-03-00288-f008">Figure 8</xref>) were drawn at 6-hour intervals with a time length of 48-hours starting from 00:00 UTC on 16 March 2008 from the EANET monitoring stations in Japan. These back trajectories indicate the air parcels in the east originating from the west and north, where the heavy industrial sources or air pollution sources are located. From this we may presume that the pollutants mainly of mobile origin are responsible for the production of ozone. <xref ref-type="fig" rid="atmosphere-03-00288-f007">Figure 7</xref> shows the magnitude of the wind speed and direction based on WRF simulations. The simulated wind direction shows that Japan was under the control of westerly or northwesterly winds from Asia [<xref ref-type="bibr" rid="B40-atmosphere-03-00288">40</xref>].</p>
        <fig id="atmosphere-03-00288-f007" position="anchor">
          <label>Figure 7</label>
          <caption>
            <p>The temperature distribution (°C) at 15:00 UTC on 14 March and 00:00 UTC on 15 March.</p>
          </caption>
          <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g007.tif"/>
        </fig>
        <fig id="atmosphere-03-00288-f008" position="anchor">
          <label>Figure 8</label>
          <caption>
            <p>Back trajectories from the observation site drawn at 3-hour intervals starting from 00:00 UTC on 16 March 2008 each with a time length of 48 hours.</p>
          </caption>
          <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g008.tif"/>
        </fig>
      </sec>
      <sec>
        <title>6.4. Vertical Distribution of Ozone Concentrations</title>
        <p>This section analyzes the vertical distribution of the ozone concentrations in the PBL and discusses correlations between concentrations in the ground and at elevated levels of the vertical sections of PBL at a fixed latitude (35.7°N) for an east-west cross section of the entire domain from 12:00 UTC on 14 March (9:00 p.m. on 14 March, Japan Standard Time) to 18:00 UTC on 15 March (3:00 a.m. on 16 March, Japan Standard Time). <xref ref-type="fig" rid="atmosphere-03-00288-f009">Figure 9</xref> shows the vertical profiles of the mean ozone concentrations in the 3.67 km (600 mbar) layer of the atmosphere based on the WRF/Chem model simulations. The vertical concentrations of ozone were a little higher in the morning and noon than at midnight, while the vertical distribution of tropospheric ozone showed an increase in concentration with height. It is evident that, due to the influence of urbanization in the metropolitan Tokyo area (latitude 35.7°N, longitude 139.7°E), the atmospheric boundary layer becomes stable, and it is thus difficult for ozone to be transported upward and diffused; therefore, the concentration of ozone was lower at the ground level. </p>
        <p>In general, the surface ozone exhibits strong diurnal variations, with a mid-afternoon maximum and an early-morning minimum [<xref ref-type="bibr" rid="B95-atmosphere-03-00288">95</xref>,<xref ref-type="bibr" rid="B96-atmosphere-03-00288">96</xref>]. In this study, concentrations of ozone in the ground level during the day were much greater than those at night (<xref ref-type="fig" rid="atmosphere-03-00288-f009">Figure 9</xref>). At night, the presence of a temperature inversion isolates the surface-level ozone from that of upper levels, as there is little or no vertical mixing between the surface layer and levels above the nocturnal boundary layer (NBL). Surface ozone is partly removed by deposition and reaction with nitric oxide (NO). Because no ozone is produced in the absence of sunlight at night, ozone concentrations begin to decrease after sunset, reaching a minimum in the early morning before sunrise.</p>
        <p>After sunrise, the height of the unstable boundary layer begins to increase as the surface is heated and the nocturnal inversion is destroyed. This results in downward mixing of ozone from higher altitudes [<xref ref-type="bibr" rid="B97-atmosphere-03-00288">97</xref>]. Surface ozone is also locally generated by the reactions of nitrogen oxides with volatile organic compounds (VOCs) in the presence of sunlight [<xref ref-type="bibr" rid="B22-atmosphere-03-00288">22</xref>,<xref ref-type="bibr" rid="B98-atmosphere-03-00288">98</xref>,<xref ref-type="bibr" rid="B99-atmosphere-03-00288">99</xref>]. In this study, ozone concentrations increased rapidly from early morning to about noon. <xref ref-type="fig" rid="atmosphere-03-00288-f009">Figure 9</xref> shows that the concentration of ozone was 30–34 ppb at ground and level 46 ppb at 3.67 km altitude at 00:00 UTC on 16 March (9:00 a.m. on 15 March, Japan Standard Time). By noon, the mixing height typically exceeded 1 km, and ozone was well mixed within the mixing layer. Strong photochemical production and strong convection in the mid-afternoon period caused ozone concentrations to reach peak values in the late afternoon. In <xref ref-type="fig" rid="atmosphere-03-00288-f009">Figure 9</xref>, the concentration distribution of ozone was calculated 32–36 in different places at ground level and 50 ppb at 3.67 km altitude at 06:00 UTC on 15 March (15:00 p.m. on 15 March, Japan Standard Time). Ozone production decreased with diminishing sunlight intensity, resulting in a decrease in ozone concentrations with time. At sunset, concentrations decreased substantially below the afternoon maximum value. <xref ref-type="fig" rid="atmosphere-03-00288-f009">Figure 9</xref> shows that the ground level ozone concentration at 12:00 UTC on 15 March (9:00 p.m. on 15 March, Japan Standard Time) and 18:00 UTC on 15 March (3:00 a.m. on 16 March, Japan Standard Time) varied from 26–30 ppb. As a new NBL began to form in the evening, ozone concentrations near the surface continued to fall due to surface deposition and reaction with NO. <xref ref-type="fig" rid="atmosphere-03-00288-f009">Figure 9</xref> shows that the typical vertical profile of ozone concentrations at night was unbalanced, caused by dry deposition onto the surface and reactions with NO, and that the typical daytime profile was stable, which reflects the important roles of both the local production of ozone and greater convective vertical mixing. </p>
        <fig id="atmosphere-03-00288-f009" position="anchor">
          <label>Figure 9</label>
          <caption>
            <p>The vertical distribution of ozone concentrations (ppb) in an east-west cross section at a fixed latitude (35.7°N) from 12:00 UTC on 14 March to 18:00 UTC on 15 March (6 hours interval). The y-axis represents the atmospheric pressure (mbar).</p>
          </caption>
          <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g009.tif"/>
        </fig>
      </sec>
      <sec>
        <title>6.5. Tropospheric NOx Transportation</title>
        <p>Due to anthropogenic activities, the atmospheric trace gas composition has undergone signiﬁcant changes during the past few decades. In particular, the tropospheric concentrations of many trace species (e.g., O<sub>3</sub>, CO, NO, NO<sub>2</sub>, and CH<sub>4</sub>) have largely increased. Nitrogen oxides (NOx = NO + NO<sub>2</sub>) are key species in atmospheric chemistry and are heavily influenced by anthropogenic emissions. The availability of NOx limits photochemical ozone formation in rural and remote regions [<xref ref-type="bibr" rid="B22-atmosphere-03-00288">22</xref>,<xref ref-type="bibr" rid="B100-atmosphere-03-00288">100</xref>] and particularly in the upper troposphere [<xref ref-type="bibr" rid="B101-atmosphere-03-00288">101</xref>], where the impact of ozone on radiative forcing is strongest [<xref ref-type="bibr" rid="B102-atmosphere-03-00288">102</xref>]. NOx also contributes to acid deposition from the atmosphere [<xref ref-type="bibr" rid="B103-atmosphere-03-00288">103</xref>]. While the lifetime of NOx in the atmospheric boundary layer (about a day) is too short to allow transport over large distances, its lifetime in the upper troposphere is of the order of 5–10 days [<xref ref-type="bibr" rid="B104-atmosphere-03-00288">104</xref>], which is sufficient even for intercontinental transport [<xref ref-type="bibr" rid="B105-atmosphere-03-00288">105</xref>]. However, due to removal processes, transport of reactive nitrogen to the upper troposphere is inefficient from the surface, where the largest sources are located [<xref ref-type="bibr" rid="B106-atmosphere-03-00288">106</xref>]. </p>
        <p>In this study, we simulated the evolution of the NOx plume with the atmospheric chemical transportation model WRF/Chem. The simulation results showed a plume that traveled eastward from east China (06:00 UTC on 14 March) over the East Sea, passing the southern part of the Tohoku region of Japan (00:00 on UTC 15 March) and then floated toward the Pacific Ocean (00:09 UTC on 15 March). <xref ref-type="fig" rid="atmosphere-03-00288-f010">Figure 10</xref> shows the NOx concentrations (ppb) over the coastal areas of the Sea of Japan. The pink color in <xref ref-type="fig" rid="atmosphere-03-00288-f010">Figure 10</xref> indicates high NOx concentrations (75–80 ppb), which formed in east China and were driven eastward under the influence of strong winds. The average range of NOx concentrations within the entire domain simulated by the WRF/Chem model was 40–60 ppb. Because the photochemical lifetime of NOx depends strongly on the presence of ozone (O<sub>3</sub>) derived from NOx removal reactions, particularly the conversion ozone to N<sub>2</sub>O<sub>5 </sub>via O<sub>3</sub> + NO<sub>2</sub> → NO<sub>3</sub> + O<sub>2</sub> and NO<sub>2</sub> + NO<sub>3</sub> → N<sub>2</sub>O<sub>5</sub> [<xref ref-type="bibr" rid="B107-atmosphere-03-00288">107</xref>], the NOx concentration was approximately 25–30 ppv in the purple area of <xref ref-type="fig" rid="atmosphere-03-00288-f010">Figure 10</xref>. </p>
        <fig id="atmosphere-03-00288-f010" position="anchor">
          <label>Figure 10</label>
          <caption>
            <p>NOx concentrations (g/m<sup>3</sup>) over the coastal areas of the Sea of Japan.</p>
          </caption>
          <graphic xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="atmosphere-03-00288-g010.tif"/>
        </fig>
      </sec>
    </sec>
    <sec sec-type="conclusions">
      <title>7. Conclusions</title>
      <p>By using the new generation of the regional air quality model WRF/Chem V3.3, a two-day heavy-pollution episode in March 2008 was investigated. Rapid ozone changes from 00:00 UTC on 14 March to 00:00 UTC on 16 March were observed throughout the entire domain of the coastal area of the Sea of Japan. During this 2-day period, the daytime and nighttime concentrations of ozone changed from 50 to 30 ppb throughout the entire domain. To understand the processes controlling this rapid change in ozone concentrations, a three-dimensional regional chemical/dynamical model (WRF/Chem) was applied. The results showed that the calculated trends of ozone concentrations and ozone precursors are consistent with the measured trends. The calculated magnitudes and diurnal variations of ozone were slightly underestimated relative to the measured values in most of the rural areas, while they were overestimated in populated urban areas, suggesting that industrial emissions or emissions from biomass burning in populated urban areas are significantly underestimated in this study and that their estimates need to be improved. The model’s relatively coarse horizontal grid spacing in this study may have led to the overestimation in the O<sub>3</sub> calculation. Therefore, the resolution of the WRF/Chem model in this study may not be high enough to predict the ozone concentrations over populated Japanese areas. Additionally, because the model is capable of calculating rapid changes in ozone, it is suitable for studying the causes of the changes in ozone. The analysis of the model results suggests that weather conditions play important roles in controlling the surface ozone in the coastal areas of the Sea of Japan. Under the winter weather system, the high ozone concentrations, which were chemically formed in the inland areas, were rapidly transported to the downwind region of the coastal areas, resulting in low ozone concentrations in the urbanized region of East Asia. This study illustrates that the WRF/Chem model is a useful tool for studying the high variability of ozone concentrations. The study of ozone variability has important implications for the prediction of ozone concentrations and for control strategies of high ozone events in the coastal areas of the Sea of Japan.</p>
    </sec>
  </body>
  <back>
    <ack>
      <title>Acknowledgments</title>
      <p>We wish to thank Kobayashi Tomonao of the Faculty of Engineering of Gifu University for sharing resources and data with us. Our deepest gratitude is also expressed to Naher Meherun, the late wife of the first author and a former doctoral student of the Graduate School of Agriculture, Gifu University, who passed away in February 2010.</p>
    </ack>
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