<?xml version="1.0" encoding="UTF-8"?><!DOCTYPE article  PUBLIC "-//NLM//DTD Journal Publishing DTD v3.0 20080202//EN" "http://dtd.nlm.nih.gov/publishing/3.0/journalpublishing3.dtd"><article xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" dtd-version="3.0" xml:lang="en" article-type="research article"><front><journal-meta><journal-id journal-id-type="publisher-id">JWARP</journal-id><journal-title-group><journal-title>Journal of Water Resource and Protection</journal-title></journal-title-group><issn pub-type="epub">1945-3094</issn><publisher><publisher-name>Scientific Research Publishing</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="doi">10.4236/jwarp.2017.95032</article-id><article-id pub-id-type="publisher-id">JWARP-75888</article-id><article-categories><subj-group subj-group-type="heading"><subject>Articles</subject></subj-group><subj-group subj-group-type="Discipline-v2"><subject>Earth&amp;Environmental Sciences</subject></subj-group></article-categories><title-group><article-title>
 
 
  Phylogenetic Relationships of Japanese Unionoida (Mollusca: Bivalvia) Based on Mitochondrial 16S rDNA Sequences
 
</article-title></title-group><contrib-group><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Isao</surname><given-names>Sano</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref></contrib><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Akihisa</surname><given-names>Shirai</given-names></name><xref ref-type="aff" rid="aff2"><sup>2</sup></xref></contrib><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Takaki</surname><given-names>Kondo</given-names></name><xref ref-type="aff" rid="aff3"><sup>3</sup></xref></contrib><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Jun-Ichi</surname><given-names>Miyazaki</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref><xref ref-type="corresp" rid="cor1"><sup>*</sup></xref></contrib></contrib-group><aff id="aff2"><addr-line>Musashi High School and Junior High School, Tokyo, Japan</addr-line></aff><aff id="aff3"><addr-line>Division of Natural Science, Osaka Kyoiku University, Osaka, Japan</addr-line></aff><aff id="aff1"><addr-line>Faculty of Education, University of Yamanashi, Yamanashi, Japan</addr-line></aff><author-notes><corresp id="cor1">* E-mail:<email>m16es003@yamanashi.ac.jp(JM)</email>;</corresp></author-notes><pub-date pub-type="epub"><day>17</day><month>04</month><year>2017</year></pub-date><volume>09</volume><issue>05</issue><fpage>493</fpage><lpage>509</lpage><history><date date-type="received"><day>March</day>	<month>22,</month>	<year>2017</year></date><date date-type="rev-recd"><day>Accepted:</day>	<month>April</month>	<year>27,</year>	</date><date date-type="accepted"><day>April</day>	<month>30,</month>	<year>2017</year></date></history><permissions><copyright-statement>&#169; Copyright  2014 by authors and Scientific Research Publishing Inc. </copyright-statement><copyright-year>2014</copyright-year><license><license-p>This work is licensed under the Creative Commons Attribution International License (CC BY). http://creativecommons.org/licenses/by/4.0/</license-p></license></permissions><abstract><p>
 
 
  Japanese unionoid mussels are classified into 2 families (Margaritiferidae and Unionidae), 12 genera, and 18 species based on the morphological characteristics of both adults and larvae; however, there are some debates regarding their systematics. In this study, we determined mitochondrial 16S ribosomal DNA sequences (347-bp) for 60 specimens belonging to 18 species and constructed trees to elucidate phylogenetic relationships and evaluate the current systematics of Japanese unionoid mussels. Almost all species formed clades, except for 
  Inversiunio yanagawensis, 
  Sinanodonta lauta,
   S. japonica, and 
  Margaritifera laevis, even though two or more specimens were collected from distant localities. All genera formed highly supported clades with the exception of the genus 
  Sinanodonta. Phylogenetic relationships obtained in this study supported systematics based on morphological and larval traits. Therefore, the 
  current phylogenetic relationships and systematics of Japanese unionoid mussels are stronger than they were before; now that they are corroborated by genetic data.
 
</p></abstract><kwd-group><kwd>Systematics</kwd><kwd> Molecular Barcoding</kwd><kwd> Endangered Species</kwd><kwd> Conservation</kwd><kwd> East Asian Mussels</kwd></kwd-group></article-meta></front><body><sec id="s1"><title>1. Introduction</title><p>The order Unionoida includes more than 850 species and is more diverse than any other group of freshwater bivalves [<xref ref-type="bibr" rid="scirp.75888-ref1">1</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref2">2</xref>] . Unionoid mussels are widely distributed in all continents except Antarctica and are divided into 6 families (the Unionidae, Margaritiferidae, Etheriidae, Hyriidae, Iridinidae, and Mycetopodidae). In Japan, two families, the Unionidae and Margaritiferidae, have been recognized; however, there are some debates regarding the systematics of Japanese unionoid mussels. Kondo [<xref ref-type="bibr" rid="scirp.75888-ref3">3</xref>] classified them into 2 families, 3 subfamilies, 12 genera, 17 species, and 1 subspecies, but later revised his classification [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] to include 2 families, 2 subfamilies, 12 genera, and 18 species (<xref ref-type="table" rid="table1">Table 1</xref>). In the Unionidae, Kihira et al. [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] included one additional species, Lanceolaria oxyrhyncha (Sasanohagai in Japanese), and founded two subspecies, Nodularia douglasiae biwae (Tateboshigai in Japanese) and N. d. nipponensis (Ishigai in Japanese), for N. douglasiae in Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] and also two subspecies, Cristaria plicata clessini (Menkarasugai in Japanese) and C. p. plicata (Karasugai in Japanese), for C. plicata in Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] . The taxa classified by Kihira et al. are endemic to Lake Biwa</p><table-wrap id="table1" ><label><xref ref-type="table" rid="table1">Table 1</xref></label><caption><title> Systematics of Japanese Unionoida based mainly on adult morphological characteristics and larval forms [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] </title></caption><table><tbody><thead><tr><th align="center" valign="middle" >Family</th><th align="center" valign="middle" >Subfamily</th><th align="center" valign="middle" >Genus</th><th align="center" valign="middle" >Species</th></tr></thead><tr><td align="center" valign="middle"  rowspan="2"  >Margaritiferidae Henderson, 1929</td><td align="center" valign="middle"  rowspan="2"  ></td><td align="center" valign="middle"  rowspan="2"  >Margaritifera Schumacher, 1816</td><td align="center" valign="middle" >Margaritifera laevis Haas, 1910</td></tr><tr><td align="center" valign="middle" >Margaritifera togakushiensis Kondo &amp; Kobayashi, 2005</td></tr><tr><td align="center" valign="middle" >Unionidae Rafinesque, 1820</td><td align="center" valign="middle" >Unioninae Rafinesque, 1820</td><td align="center" valign="middle" >Nodularia</td><td align="center" valign="middle" >Nodularia douglasiae Gray in Griffith &amp; Pidgeon, 1833</td></tr><tr><td align="center" valign="middle"  rowspan="3"  ></td><td align="center" valign="middle"  rowspan="3"  ></td><td align="center" valign="middle"  rowspan="3"  >Inversiunio</td><td align="center" valign="middle" >Inversiunio reinianus Kobelt, 1879</td></tr><tr><td align="center" valign="middle" >Inversiunio jokohamensis Ihering, 1893</td></tr><tr><td align="center" valign="middle" >Inversiunio yanagawensis Kondo, 1982</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Lanceolaria</td><td align="center" valign="middle" >Lanceolaria grayii Gray in Griffith &amp; Pidgeon, 1833</td></tr><tr><td align="center" valign="middle"  rowspan="4"  ></td><td align="center" valign="middle"  rowspan="4"  ></td><td align="center" valign="middle"  rowspan="4"  >Sinanodonta</td><td align="center" valign="middle" >Sinanodonta japonica Clessin, 1874</td></tr><tr><td align="center" valign="middle" >Sinanodonta lauta Martens, 1877</td></tr><tr><td align="center" valign="middle" >Sinanodonta calipygos Kobelt, 1879</td></tr><tr><td align="center" valign="middle" >Sinanodonta ogurae Kuroda &amp; Habe, 1987</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Anemina</td><td align="center" valign="middle" >Anemina arcaeformis Heude, 1977</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Cristaria</td><td align="center" valign="middle" >Cristaria plicata Leach, 1815</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pletholophus</td><td align="center" valign="middle" >Pletholophus tenuis Gray in Griffith &amp; Pidgeon, 1833</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" >Gonideinae Ortmann, 1916</td><td align="center" valign="middle" >Hyriopsis</td><td align="center" valign="middle" >Hyriopsis schlegeli Martens, 1861</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Inversidens</td><td align="center" valign="middle" >Inversidens brandti Kobelt, 1879</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Obovalis</td><td align="center" valign="middle" >Obovalis omiensis Heimburg, 1884</td></tr><tr><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pronodularia</td><td align="center" valign="middle" >Pronodularia japanensis Lea, 1859</td></tr></tbody></table></table-wrap><p>and/or the Yodo River. Although Graf and Cummings [<xref ref-type="bibr" rid="scirp.75888-ref2">2</xref>] reviewed the worldwide unionoids and proposed classification, their classification was still tentative as mentioned by themselves. At present, there is not enough information to deduce relationships between Japanese species and similar species in other parts of the world.</p><p>The classification of unionoid mussels has mainly been based on the morphological characteristics of the adults and/or the larvae such as beak sculpture, hinge teeth, shell length and larval hook. Shell characters in particular have attracted a great deal of attention for the classification of unionoid mussels because they can be used to classify fossils. However, Heard et al. [<xref ref-type="bibr" rid="scirp.75888-ref6">6</xref>] suggested that morphological similarities among unionoid species were caused in part by convergent or parallel evolution and not by their ancestry. They also insisted that unionoid systematics based on reproductive aspects more accurately reflected natural, evolutionary affinities than those based on morphological characteristics, and they thus revised the classification of North American unionoid mussels.</p><p>Studies using genetic information can objectively provide accurate phylogenetic relationships, reflecting morphological and reproductive differences, and are less influenced by convergent or parallel evolution [<xref ref-type="bibr" rid="scirp.75888-ref7">7</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref8">8</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref9">9</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref10">10</xref>] . Recently, Lopes-Lima et al. [<xref ref-type="bibr" rid="scirp.75888-ref11">11</xref>] investigated the phylogenetic relationships of 70 unionoid species using the mitochondrial cytochrome oxidase subunit I (COI) and nuclear 28S rRNA sequences (1032-bp) and showed that unionid mussels formed three clades. They assigned three subfamilies, the Unioninae, Anodontinae, and Gonideinae, to the clades. However, they used only 1 of the 18 Japanese unionoid species identified by Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] . Takeuchi et al. [<xref ref-type="bibr" rid="scirp.75888-ref12">12</xref>] analyzed the mitochondrial COI and nuclear 18S rRNA and 28S rRNA genes to deduce relationships between the morphologically distinguished Margaritifera togakushiensis and M. laevis, and confirmed that M. togakushiensis was genetically distinct from M. laevis. Their results were further supported from an ecological viewpoint; however, they used only 2 of the 18 Japanese unionoid species. Therefore, the phylogenetic relationships of Japanese Unionoida have not been resolved. To elucidate the phylogenetic relationships of Japanese unionoid mussels, genetic studies using more species are needed.</p><p>The Japanese Ministry of the Environment [<xref ref-type="bibr" rid="scirp.75888-ref13">13</xref>] has designated 13 of the 18 Ja- panese unionoid species as endangered due to deterioration of freshwater systems by human activities [<xref ref-type="bibr" rid="scirp.75888-ref14">14</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref15">15</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref16">16</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref17">17</xref>] . These filter-feeding mussels greatly influence ecological systems and play an important role in purifying water. Negishi et al. [<xref ref-type="bibr" rid="scirp.75888-ref18">18</xref>] unraveled the processes of degradation of unionoid habitats and tried to restore them. Genetic and ecological information is indispensable for preserving wildlife, and one can estimate how long a population is likely to survive by estimating its genetic diversity and population size. Phylogenetic relationships and classification corroborated by genetic analyses are also needed to transplant endangered mussels whose habitats seem to disappear in the near future and to rear them in institutions with genetic contamination avoided.</p><p>In this study, we determined mitochondrial 16S ribosomal DNA sequences (347-bp) and constructed trees to elucidate phylogenetic relationships and establish the systematics of Japanese Unionoida. We also constructed trees to reveal relationships of East Asian unionoid mussels using their 16S rDNA sequences (256-bp). We demonstrated that the phylogenetic relationships of Japanese Unionoida obtained in this study supported the systematics proposed by Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] . Therefore, the phylogenetic relationships and systematics of Japanese unionoid mussels based on genetic and morphological data were in agreement.</p></sec><sec id="s2"><title>2. Materials and Methods</title><sec id="s2_1"><title>2.1. Materials</title><p>In total, 60 unionoid specimens were collected in Japan and preserved in 99.5% ethanol. Prior to our genetic study, we identified specimens according to Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] and assigned them to the Margaritiferidae (2 species) and Unionidae (16 species). However, Nodularia douglasiae was divided into two subspecies, N. d. biwae and N. d. nipponensis, according to Kihira et al. [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] , to evaluate the validity of these subspecies. Lopes-Lima et al. [<xref ref-type="bibr" rid="scirp.75888-ref11">11</xref>] reassigned Hyriopsis cumingii to Sinohyriopsis cumingii because this species did not cluster with the other three Hyriopsis species, and Shirai et al. [<xref ref-type="bibr" rid="scirp.75888-ref19">19</xref>] analyzed mitochondrial DNA (COII- COI) and nuclear DNA (ITS1) and showed that H. cumingii and H. schlegeli were closely related. Therefore, Hyriopsis schlegeli used in this study may be renamed Sinohyriopsis schlegeli in the future. Detailed information about the specimens is listed in <xref ref-type="table" rid="table2">Table 2</xref>.</p></sec><sec id="s2_2"><title>2.2. DNA Sequencing</title><p>We dissected out the foot muscle from each unionoid mussel and boiled them at 100˚C. Then, total DNA was extracted using DNeasy&#174; Blood &amp; Tissue Kit (QIAGEN GmbH, Hilden, Germany) following the manufacturer’s protocol. To amplify the mitochondrial 16S rDNA gene, PCR was performed using KOD dash (Toyobo Co., Ltd., Osaka, Japan) under the following conditions: initial denaturation at 94˚C for 2 min, 40 cycles of denaturation at 94˚C for 1 min, annealing at 60˚C for 30 sec, and extension at 72˚C for 1 min, followed by a final extension at 72˚C for 8 min. We designed the primers (sense 16S-FW1F, 5’-GTTAGCGTGAGCGTGCTAAG-3’ and antisense 16S-FW1R, 5’-CGGTCTTAACTCAGCTCGTG-3’) to amplify female-type mitochondrial DNA sequences because unionoid mussels have the unique hereditary system named “DUI: doubly uniparental inheritance” [<xref ref-type="bibr" rid="scirp.75888-ref20">20</xref>] . In this system, mitochondria are transmitted from both male and female parents to progeny. The male-type mitochondria, which are highly divergent in DNA sequences from the female- type mitochondria, are localized exclusively in the testis, whereas the female-type mitochondria are in the whole body except for the testis. When we could not amplify DNA well, we designed two additional antisense primers (16S-FW2R, 5’-TCTTTGGGTCCTTTCGTACAA-3’ and 16S-FW3R, 5’-TTGGGGTCCTTTCGTACAA-3’) and used them for PCR. PCR products</p><table-wrap-group id="2"><label><xref ref-type="table" rid="table2">Table 2</xref></label><caption><title> Specimen details for Japanese unionoids samples used in phylogenetic analyses</title></caption><table-wrap id="2_1"><table><tbody><thead><tr><th align="center" valign="middle" >#</th><th align="center" valign="middle" >Order</th><th align="center" valign="middle" >Family</th><th align="center" valign="middle" >Species</th><th align="center" valign="middle" >Sample Ab.</th><th align="center" valign="middle" >Locality</th><th align="center" valign="middle" >Accession No.</th></tr></thead><tr><td align="center" valign="middle" >1</td><td align="center" valign="middle" >Unionoida</td><td align="center" valign="middle" >Margaritiferidae</td><td align="center" valign="middle" >Margaritifera laevis</td><td align="center" valign="middle" >Ma14-1SUTO</td><td align="center" valign="middle" >Gujo, Gifu, Japan</td><td align="center" valign="middle" >LC223972</td></tr><tr><td align="center" valign="middle" >2</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ma14-2SUTO</td><td align="center" valign="middle" >Gujo, Gifu, Japan</td><td align="center" valign="middle" >LC223973</td></tr><tr><td align="center" valign="middle" >3</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ma14-3SUTO</td><td align="center" valign="middle" >Gujo, Gifu, Japan</td><td align="center" valign="middle" >LC223974</td></tr><tr><td align="center" valign="middle" >4</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Iwaizumi, Iwate, Japan</td><td align="center" valign="middle" >EU590914*</td></tr><tr><td align="center" valign="middle" >5</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Margaritifera togakushiensis</td><td align="center" valign="middle" >Mt-k</td><td align="center" valign="middle" >Togakushi, Nagano, Japan</td><td align="center" valign="middle" >LC224020</td></tr><tr><td align="center" valign="middle" >6</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Unionidae</td><td align="center" valign="middle" >Nodularia douglasiae biwae</td><td align="center" valign="middle" >BIWATATE 2</td><td align="center" valign="middle" >Lake Biwa, Shiga, Japan</td><td align="center" valign="middle" >LC223962</td></tr><tr><td align="center" valign="middle" >7</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >BIWATATE 3</td><td align="center" valign="middle" >Lake Biwa, Shiga, Japan</td><td align="center" valign="middle" >LC223961</td></tr><tr><td align="center" valign="middle" >8</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >KAWATATE 2</td><td align="center" valign="middle" >Lake Kawaguchiko, Yamanashi, Japan</td><td align="center" valign="middle" >LC223964</td></tr><tr><td align="center" valign="middle" >9</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >KAWATATE 6</td><td align="center" valign="middle" >Lake Kawaguchiko, Yamanashi, Japan</td><td align="center" valign="middle" >LC223965</td></tr><tr><td align="center" valign="middle" >10</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >YAMATATE 8</td><td align="center" valign="middle" >Lake Yamanakako, Yamanashi, Japan</td><td align="center" valign="middle" >LC223963</td></tr><tr><td align="center" valign="middle" >11</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Nodularia douglasiae nipponensis</td><td align="center" valign="middle" >Un40-01</td><td align="center" valign="middle" >Wakayama, Japan</td><td align="center" valign="middle" >LC223975</td></tr><tr><td align="center" valign="middle" >12</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Un40-02</td><td align="center" valign="middle" >Wakayama, Japan</td><td align="center" valign="middle" >LC223976</td></tr><tr><td align="center" valign="middle" >13</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Un43-06f</td><td align="center" valign="middle" >Nakama, Fukuoka, Japan</td><td align="center" valign="middle" >LC223977</td></tr><tr><td align="center" valign="middle" >14</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Un43-07f</td><td align="center" valign="middle" >Nakama, Fukuoka, Japan</td><td align="center" valign="middle" >LC223978</td></tr><tr><td align="center" valign="middle" >15</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >South Korea</td><td align="center" valign="middle" >GQ451850*</td></tr><tr><td align="center" valign="middle" >16</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >South Korea</td><td align="center" valign="middle" >GQ451851*</td></tr><tr><td align="center" valign="middle" >17</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389406*</td></tr><tr><td align="center" valign="middle" >18</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Inversiunio reinianus</td><td align="center" valign="middle" >Ir07-02</td><td align="center" valign="middle" >Lake Biwa, Shiga, Japan</td><td align="center" valign="middle" >LC223979</td></tr><tr><td align="center" valign="middle" >19</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Inversiunio jokohamensis</td><td align="center" valign="middle" >Ij25-01</td><td align="center" valign="middle" >Sakai, Yamagata, Japan</td><td align="center" valign="middle" >LC223980</td></tr><tr><td align="center" valign="middle" >20</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ij25-09</td><td align="center" valign="middle" >Sakai, Yamagata, Japan</td><td align="center" valign="middle" >LC223981</td></tr><tr><td align="center" valign="middle" >21</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ij21-28f</td><td align="center" valign="middle" >Lake Anenuma, Aomori, Japan</td><td align="center" valign="middle" >LC223982</td></tr><tr><td align="center" valign="middle" >22</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ij21-30f</td><td align="center" valign="middle" >Lake Anenuma, Aomori, Japan</td><td align="center" valign="middle" >LC223983</td></tr><tr><td align="center" valign="middle" >23</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ij08-01</td><td align="center" valign="middle" >Lake Kitaura, Ibaraki, Japan</td><td align="center" valign="middle" >LC223984</td></tr><tr><td align="center" valign="middle" >24</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ij08-03</td><td align="center" valign="middle" >Lake Kitaura, Ibaraki, Japan</td><td align="center" valign="middle" >LC223985</td></tr><tr><td align="center" valign="middle" >25</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Inversiunio yanagawensis</td><td align="center" valign="middle" >Iy09-08</td><td align="center" valign="middle" >Gion, Okayama, Japan</td><td align="center" valign="middle" >LC223986</td></tr><tr><td align="center" valign="middle" >26</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Iy09-10</td><td align="center" valign="middle" >Gion, Okayama, Japan</td><td align="center" valign="middle" >LC223987</td></tr><tr><td align="center" valign="middle" >27</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Iy43-01</td><td align="center" valign="middle" >Fukuoka, Japan</td><td align="center" valign="middle" >LC223988</td></tr><tr><td align="center" valign="middle" >28</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Iy43-05f</td><td align="center" valign="middle" >Fukuoka, Japan</td><td align="center" valign="middle" >LC223989</td></tr><tr><td align="center" valign="middle" >29</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Lanceolaria grayii</td><td align="center" valign="middle" >Lg04-01SUTO</td><td align="center" valign="middle" >Hiroshima, Japan</td><td align="center" valign="middle" >LC223990</td></tr><tr><td align="center" valign="middle" >30</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Lg04-02SUTO</td><td align="center" valign="middle" >Hiroshima, Japan</td><td align="center" valign="middle" >LC223991</td></tr><tr><td align="center" valign="middle" >31</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Lg14-01SUTO</td><td align="center" valign="middle" >Gifu, Japan</td><td align="center" valign="middle" >LC223992</td></tr><tr><td align="center" valign="middle" >32</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Lg14-2f</td><td align="center" valign="middle" >Gifu, Japan</td><td align="center" valign="middle" >LC223993</td></tr><tr><td align="center" valign="middle" >33</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389408*</td></tr><tr><td align="center" valign="middle" >34</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Obovalis omiensis</td><td align="center" valign="middle" >Oo14-01m</td><td align="center" valign="middle" >Gifu, Japan</td><td align="center" valign="middle" >LC223994</td></tr><tr><td align="center" valign="middle" >35</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Oo16-01SUTO</td><td align="center" valign="middle" >Kyoto, Japan</td><td align="center" valign="middle" >LC223995</td></tr><tr><td align="center" valign="middle" >36</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pronodularia japanensis</td><td align="center" valign="middle" >Pj25-06</td><td align="center" valign="middle" >Sakai, Yamagata, Japan</td><td align="center" valign="middle" >LC223996</td></tr><tr><td align="center" valign="middle" >37</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pj14-02f</td><td align="center" valign="middle" >Gifu, Japan</td><td align="center" valign="middle" >LC223997</td></tr><tr><td align="center" valign="middle" >38</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pj14-05f</td><td align="center" valign="middle" >Gifu, Japan</td><td align="center" valign="middle" >LC223998</td></tr><tr><td align="center" valign="middle" >39</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pj08-01</td><td align="center" valign="middle" >Lake Kitaura, Ibaraki, Japan</td><td align="center" valign="middle" >LC223999</td></tr></tbody></table></table-wrap><table-wrap id="2_2"><table><tbody><thead><tr><th align="center" valign="middle" >40</th><th align="center" valign="middle" ></th><th align="center" valign="middle" ></th><th align="center" valign="middle" ></th><th align="center" valign="middle" >Pj08-02</th><th align="center" valign="middle" >Lake Kitaura, Ibaraki, Japan</th><th align="center" valign="middle" >LC224000</th></tr></thead><tr><td align="center" valign="middle" >41</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pj04-01SUTO</td><td align="center" valign="middle" >Hiroshima, Japan</td><td align="center" valign="middle" >LC224001</td></tr><tr><td align="center" valign="middle" >42</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pj04-03SUTO</td><td align="center" valign="middle" >Hiroshima, Japan</td><td align="center" valign="middle" >LC224002</td></tr><tr><td align="center" valign="middle" >43</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pj-k</td><td align="center" valign="middle" >Sakurai, Nara, Japan</td><td align="center" valign="middle" >LC224019</td></tr><tr><td align="center" valign="middle" >44</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Inversidens brandti</td><td align="center" valign="middle" >Ib14-01f</td><td align="center" valign="middle" >Gifu, Japan</td><td align="center" valign="middle" >LC224003</td></tr><tr><td align="center" valign="middle" >45</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ib14-02f</td><td align="center" valign="middle" >Gifu, Japan</td><td align="center" valign="middle" >LC224004</td></tr><tr><td align="center" valign="middle" >46</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Hyriopsis schlegeli</td><td align="center" valign="middle" >Hs21-02f</td><td align="center" valign="middle" >Lake Anenuma, Aomori, Japan</td><td align="center" valign="middle" >LC224005</td></tr><tr><td align="center" valign="middle" >47</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Hs21-05f</td><td align="center" valign="middle" >Lake Anenuma, Aomori, Japan</td><td align="center" valign="middle" >LC224006</td></tr><tr><td align="center" valign="middle" >48</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Cristaria plicata</td><td align="center" valign="middle" >Cp21-10f</td><td align="center" valign="middle" >Lake Anenuma, Aomori, Japan</td><td align="center" valign="middle" >LC224007</td></tr><tr><td align="center" valign="middle" >49</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Cp21-11f</td><td align="center" valign="middle" >Lake Anenuma, Aomori, Japan</td><td align="center" valign="middle" >LC224008</td></tr><tr><td align="center" valign="middle" >50</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Cp31-01fmg</td><td align="center" valign="middle" >Joetsu, Niigata, Japan</td><td align="center" valign="middle" >LC224009</td></tr><tr><td align="center" valign="middle" >51</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >YAMAKARA 1</td><td align="center" valign="middle" >Lake Yamanakako, Yamanashi, Japan</td><td align="center" valign="middle" >LC223968</td></tr><tr><td align="center" valign="middle" >52</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >YAMAKARA 2</td><td align="center" valign="middle" >Lake Yamanakako, Yamanashi, Japan</td><td align="center" valign="middle" >LC223969</td></tr><tr><td align="center" valign="middle" >53</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >YAMAKARA 5</td><td align="center" valign="middle" >Lake Yamanakako, Yamanashi, Japan</td><td align="center" valign="middle" >LC223971</td></tr><tr><td align="center" valign="middle" >54</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >YAMAKARA 6</td><td align="center" valign="middle" >Lake Yamanakako, Yamanashi, Japan</td><td align="center" valign="middle" >LC223970</td></tr><tr><td align="center" valign="middle" >55</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Zhejiang, China</td><td align="center" valign="middle" >FJ986302<sup>*</sup></td></tr><tr><td align="center" valign="middle" >56</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389414<sup>*</sup></td></tr><tr><td align="center" valign="middle" >57</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Sinanodonta lauta</td><td align="center" valign="middle" >fk168</td><td align="center" valign="middle" >Ishikawa, Japan</td><td align="center" valign="middle" >LC224010</td></tr><tr><td align="center" valign="middle" >58</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >KONZAISYU E</td><td align="center" valign="middle" >Lake Biwa, Shiga, Japan</td><td align="center" valign="middle" >LC223967</td></tr><tr><td align="center" valign="middle" >59</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >FUKUNUMA 22</td><td align="center" valign="middle" >Minamisoma, Fukushima, Japan</td><td align="center" valign="middle" >LC223966</td></tr><tr><td align="center" valign="middle" >60</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Sinanodonta japonica</td><td align="center" valign="middle" >fk20f</td><td align="center" valign="middle" >Kyoto, Japan</td><td align="center" valign="middle" >LC224011</td></tr><tr><td align="center" valign="middle" >61</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >fk35f</td><td align="center" valign="middle" >Kushiro, Hokkaido, Japan</td><td align="center" valign="middle" >LC224012</td></tr><tr><td align="center" valign="middle" >62</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Sinanodonta calipygos</td><td align="center" valign="middle" >fk221</td><td align="center" valign="middle" >Lake Biwa, Shiga, Japan</td><td align="center" valign="middle" >LC224013</td></tr><tr><td align="center" valign="middle" >63</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Sinanodonta ogurae</td><td align="center" valign="middle" >fk156</td><td align="center" valign="middle" >Yodo River, Japan</td><td align="center" valign="middle" >LC224015</td></tr><tr><td align="center" valign="middle" >64</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Anemina arcaeformis</td><td align="center" valign="middle" >fk63f</td><td align="center" valign="middle" >Kagawa, Japan</td><td align="center" valign="middle" >LC224014</td></tr><tr><td align="center" valign="middle" >65</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pletholophus tenuis</td><td align="center" valign="middle" >Pt43-01</td><td align="center" valign="middle" >Munakata, Fukuoka, Japan</td><td align="center" valign="middle" >LC224016</td></tr><tr><td align="center" valign="middle" >66</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pt43-02</td><td align="center" valign="middle" >Munakata, Fukuoka, Japan</td><td align="center" valign="middle" >LC224017</td></tr><tr><td align="center" valign="middle" >67</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Pt43-03</td><td align="center" valign="middle" >Munakata, Fukuoka, Japan</td><td align="center" valign="middle" >LC224018</td></tr><tr><td align="center" valign="middle" >68</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Acuticosta ovata</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389412<sup>*</sup></td></tr><tr><td align="center" valign="middle" >69</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Arconaia lanceolata</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389409<sup>*</sup></td></tr><tr><td align="center" valign="middle" >70</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Cuneopsis pisciculus</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389407<sup>*</sup></td></tr><tr><td align="center" valign="middle" >71</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Hyriopsis cumingii</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389418<sup>*</sup></td></tr><tr><td align="center" valign="middle" >72</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Lamprotula leai</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389415<sup>*</sup></td></tr><tr><td align="center" valign="middle" >73</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Lepidodesma languilati</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389411<sup>*</sup></td></tr><tr><td align="center" valign="middle" >74</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Ptychorhynchus ptisteri</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389416<sup>*</sup></td></tr><tr><td align="center" valign="middle" >75</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Schistodesmus lampreyanus</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389410<sup>*</sup></td></tr><tr><td align="center" valign="middle" >76</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Sinanodonta woodiana</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389413<sup>*</sup></td></tr><tr><td align="center" valign="middle" >77</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Solenaia oleivora</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Jiangxi, China</td><td align="center" valign="middle" >AF389417<sup>*</sup></td></tr><tr><td align="center" valign="middle" >78</td><td align="center" valign="middle" >Trigoniida</td><td align="center" valign="middle" >Trigoniidae</td><td align="center" valign="middle" >Neotrigonia lamarckii</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >data not available</td><td align="center" valign="middle" >KC429262<sup>*</sup></td></tr><tr><td align="center" valign="middle" >79</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Neotrigonia margaritacea</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >data not available</td><td align="center" valign="middle" >DQ093489<sup>*</sup></td></tr><tr><td align="center" valign="middle" >80</td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" ></td><td align="center" valign="middle" >data not available</td><td align="center" valign="middle" >DQ280034<sup>*</sup></td></tr></tbody></table></table-wrap></table-wrap-group><p>*Obtained from the DDBJ.</p><p>were purified using QIAquick&#174; PCR Purification Kit (QIAGEN GmbH, Hilden, Germany). Sequence reactions were performed using GenomeLab<sup>TM</sup> DTCS- Quick Start Kit (Beckman Coulter Inc., California, USA), and the same primers for PCR under the following conditions: 30 cycles of denaturation at 96˚C for 20 sec, annealing at 50˚C for 20 sec, and extension at 60˚C for 4 min. Direct sequencing of the double-stranded PCR products was performed using a CEQ<sup>TM</sup> 2000XL DNA Analysis system (Beckman Coulter Inc., California, USA) following the manufacturer’s instructions. Sequences were deposited in the DNA Data Bank of Japan (DDBJ) under accession numbers LC223961-LC224020. The length of the sequences obtained ranged from 444 bp in Hyriopsis schlegeli (Hs21-05f) to 525 bp in Margaritifera togakushiensis (Mt-k). We used seventeen 16S rDNA sequences of Unionoida registered in the DDBJ (EU590914, GQ451850, GQ451851, AF389406, FJ986302, AF389414, AF389412, AF389409, AF389407, AF389418, AF389415, AF389408, AF389411, AF389416, AF389410, AF389413, AF389417), and we used Neotrigonia lamarckii (KC429262) and Neotrigonia margaritacea (DQ093489, DQ280034) sequences as the outgroup (<xref ref-type="table" rid="table2">Table 2</xref>).</p></sec><sec id="s2_3"><title>2.3. Phylogenetic Analysis</title><p>DNA sequences of mitochondrial 16S rDNA were edited and aligned using DNASIS (Hitachi Software Engineering Co., Ltd., Tokyo, Japan) and MEGA 6.0 [<xref ref-type="bibr" rid="scirp.75888-ref21">21</xref>] and confirmed by visual inspection. No saturation was observed via analysis of nucleotide substitution patterns in mitochondrial 16S rDNA [<xref ref-type="bibr" rid="scirp.75888-ref9">9</xref>] . We used 347-bp sequences for tree construction including only Japanese unionoid species as the ingroup. On the other hand, we used 256-bp sequences for tree construction of East Asian unionoid species. Unfortunately, sequences for Chinese mussels deposited in the DDBJ [<xref ref-type="bibr" rid="scirp.75888-ref22">22</xref>] were shorter than those determined in this study. A neighbor-joining (NJ) tree was constructed using MEGA 6.0, and genetic distances were computed using Kimura’s two-parameter model [<xref ref-type="bibr" rid="scirp.75888-ref23">23</xref>] . Tree reliability was evaluated by generating 1000 bootstrap replicates. Using PAUP*4.0 beta10 [<xref ref-type="bibr" rid="scirp.75888-ref24">24</xref>] , a majority-rule consensus maximum parsimony (MP) tree was constructed by conducting a heuristic search based on the 1000 bootstrap replicates with an unweighted transition/transversion ratio. A Bayesian (BI) tree was constructed using MrBayes version 3.2.6 [<xref ref-type="bibr" rid="scirp.75888-ref25">25</xref>] based on model evaluation done with MrModeltest 2.3 [<xref ref-type="bibr" rid="scirp.75888-ref26">26</xref>] . The best model for both trees was GTR + G. The Monte Carlo Markov chain (MCMC) length was 5 &#215; 10<sup>6</sup> generations, and we sampled the chain every 100 generations. MCMC convergence was assessed by calculating the potential scale reduction factor, and the first 2.5 &#215; 10<sup>4</sup> generations were discarded.</p></sec></sec><sec id="s3"><title>3. Results</title><p>Phylogenetic relationships of Japanese unionoids based on 347 bp of the 16S rRNA gene are shown in <xref ref-type="fig" rid="fig1">Figure 1</xref>. There were 183 variable sites and 176 informative sites. Topologies depicted by MP and Bayesian trees were essentially</p><fig id="fig1"  position="float"><label><xref ref-type="fig" rid="fig1">Figure 1</xref></label><caption><title> Japanese unionoid mussel NJ tree based on 347-bp 16S rDNA sequences from 64 specimens including three outgroup Neotrigonia specimens. The specimens, the sequences of which were newly determined in this study, are enclosed in squares. The scale bar indicates 0.05 substitutions per site. NJ (left) and MP (middle) bootstrap values and Bayesian posterior probabilities (right) are specified near the relevant nodes. Nodularia douglasiae was divided into two subspecies, N. d. biwae and N. d. nipponensis according to Kihira et al. [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] . The classifications depicted here are mainly based on Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] </title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/6-9403144x2.png"/></fig><p>identical to that of the NJ tree. Based on our analyses, Japanese unionoid mussels were divided into two well-supported clades (98/97/0.78 and 100/100/1.00, NJ/ MP/Bayesian, respectively) corresponding to two families, the Margaritiferidae and Unionidae. In the Unionidae, there were two well-supported clades (94/76/ 0.84 and 96/93/1.00) corresponding to the subfamilies Unioninae and Gonideinae. Most genera formed clades with high statistical supports. The only exception was the genus Sinanodonta, which formed a poorly supported clade (59/59/ 0.93). When two or more specimens were used, most species formed clades with robust statistical supports, even though the specimens were collected in distant localities. For example, Obovalis omiensis specimens were obtained from Gifu and Kyoto Prefectures, those of Lanceolaria grayii from Gifu and Hiroshima Prefectures, and those of Pronodularia japanensis from Ibaraki, Hiroshima, Nara, Gifu, and Yamagata Prefectures. However, Inversiunio jokohamensis formed a marginally supported clade (86/76/0.61). Inversiunio yanagawensis and Margaritifera laevis did not form their own species clades, and two species, Sinanodonta lauta and S. japonica, exhibited complicated relationships with S. ogurae and S. calipygos. The two subspecies described by Kihira et al. [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] , Nodularia douglasiae biwae and N. d. nipponensis, did not form their own subspecies clades.</p><p>Phylogenetic relationships of East Asian unionoids based on 256 bp of the 16S rRNA gene are shown in <xref ref-type="fig" rid="fig2">Figure 2</xref>. There were 138 variable sites and 130 informative sites. Topologies depicted by MP and Bayesian trees were essentially identical to that of the NJ tree. Two robustly supported clades corresponding to the Margaritiferidae and Unionidae were recognized (100/100/1.00 and 100/99/ 1.00, respectively). Most genera and species formed clades; however, Sinanodonta did not form its own clade. The Inversiunio clade was well supported in the Japanese unionoid tree (<xref ref-type="fig" rid="fig1">Figure 1</xref>), but was only marginally supported in the East Asian unionoid tree (<xref ref-type="fig" rid="fig2">Figure 2</xref>) likely due to the shorter sequences used to make the latter tree. On the other hand, Margaritifera laevis was paraphyletic in the Japanese unionoid tree (<xref ref-type="fig" rid="fig1">Figure 1</xref>), but it formed a clade in the East Asian unionoid tree (<xref ref-type="fig" rid="fig2">Figure 2</xref>).</p></sec>
<sec id="s4">
<title>4. Discussion</title>
<p>Japanese unionoid mussels were basally divided into two clades corresponding to the two families described by Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] who showed that the Margaritiferidae had interlamellar gill junctions arranged in diagonal rows, while the Unionidae had interlamellar gill junctions combined into vertical septa. Rosenberg et al. [<xref ref-type="bibr" rid="scirp.75888-ref27">27</xref>] presented preliminarily the molecular phylogeny of invertebrate animals, including the Unionoida, by analyzing the D6 region (about 150-bp) of the nuclear 28S rRNA gene. They showed that margaritiferid species could be distinguished from other unionoid species, which supported our results.</p>
<p>Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] reported that there were two subfamilies, the Unioninae and Gonideinae, in the family Unionidae. He regarded mussels having subtriangular and hooked glochidia as Unioninae and those having essentially semi-elliptical</p>
<fig id="fig2"  position="float"><label><xref ref-type="fig" rid="fig2">Figure 2</xref></label>
<caption><title> East Asian unionoid mussel NJ tree based on 256-bp 16S rDNA sequences from 80 specimens including three outgroup Neotrigonia specimens. The specimens, the sequences of which were newly determined in this study, are enclosed in squares. The scale bar indicates 0.05 substitutions per site. NJ (left) and MP (middle) bootstrap values and Bayesian posterior probabilities (right) are specified near the relevant nodes</title></caption>
<graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/6-9403144x3.png"/></fig>
<p>and unhooked glochidia as Gonideinae. Our results supported Kondo’s subfamily classification. Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] further classified unionoid mussels into 12 genera and 18 species, mainly based on their shell morphology. In this study, most genera formed well supported clades, although the genus Sinanodonta was poorly supported. Most species also formed well supported clades, but one species formed a marginally supported clade or some did not form clades at all. Takeuchi et al. [<xref ref-type="bibr" rid="scirp.75888-ref12">12</xref>] showed that a phylogenetic tree based on mitochondrial COI sequences distinguished M. laevis from M. togakushiensis. Our results supported their results in the East Asian unionoid tree (<xref ref-type="fig" rid="fig2">Figure 2</xref>), but not in the Japanese unionoid tree (<xref ref-type="fig" rid="fig1">Figure 1</xref>). Of the three species of Inversiunio, I. jokohamensis was marginally supported and I. yanagawensis was paraphyletic, but I. yanagawensis and I. reinianus formed a clade together. Genetic distances between I. yanagawensis and I. reinianus (0.00581 in <xref ref-type="table" rid="table3">Table 3</xref> and 0.00394 in <xref ref-type="table" rid="table4">Table 4</xref>) were as low as the intraspecific genetic distances within I. jokohamensis (0.00405 in <xref ref-type="table" rid="table3">Table 3</xref> and 0.00419 in <xref ref-type="table" rid="table4">Table 4</xref>). Therefore, in this study, I. yanagawensis could not be genetically well-distinguished from I. reinianus. Complicated relationships between Sinanodonta species seem to be derived from large morphological variation within the genus, which sometimes confuses species identification [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] [<xref ref-type="bibr" rid="scirp.75888-ref28">28</xref>] . To obtain more robust phylogenetic relationships of those species, we need to collect and analyze more specimens and use another gene such as the mitochondrial cytochrome oxidase subunit I (COI) gene for molecular barcording.</p><p>Kihira et al. [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] recognized Lanceolaria oxyrhyncha as a valid species different from L. grayii, which is widely distributed in Japan. However, Kondo [<xref ref-type="bibr" rid="scirp.75888-ref3">3</xref>] claimed that L. oxyrhyncha could not be separated morphologically from L. grayii, and Shirai [<xref ref-type="bibr" rid="scirp.75888-ref29">29</xref>] showed that L. oxyrhyncha was not genetically distinct from L. grayii. Kihira et al. [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] recognized Cristaria plicata clessini as a valid subspecies. However, Kondo [<xref ref-type="bibr" rid="scirp.75888-ref3">3</xref>] showed that C. p. clessini seems to be a lacustrine type of C. plicata and considered it doubtful that C. p. clessini is a subspecies. Hence, we did not use L. oxyrhyncha or C. p. clessini in this study. Nodularia douglasiae was also problematic. Kihira et al. [<xref ref-type="bibr" rid="scirp.75888-ref5">5</xref>] established two subspecies, N. d. biwae and N. d. nipponensis, and Kondo [<xref ref-type="bibr" rid="scirp.75888-ref30">30</xref>] regarded the individuals with milky-white glochidia as N. d. biwae and the others with buff glochidia as N. d. nipponensis. Later, Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] resolved that glochidium colors did not seem to be sufficiently diagnostic to identify the subspecies because there was substantial variation in color as is also often the case with Inversidens brandti and Lanceolaria grayii. We showed in this study that one specimen of N. d. nipponensis (Un40-02) was more closely related to specimens of N. d. biwae than to the other specimens of N. d. nipponensis. Shirai [<xref ref-type="bibr" rid="scirp.75888-ref29">29</xref>] showed, based on mitochondrial DNA (COI + II), that Nodularia douglasiae is divided into two clades (east and west), but each subspecies did not form its own clade. Taken together, these results suggest that N. d. biwae and N. d. nipponensis are not valid as subspecies.</p><p>The phylogenetic relationships obtained in this study essentially supported the systematics proposed by Kondo [<xref ref-type="bibr" rid="scirp.75888-ref4">4</xref>] that are primarily based on morphological and larval traits. Never before have any published studies comprehensively in-</p></sec></body>
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