133 lines
13 KiB
XML
133 lines
13 KiB
XML
|
<document id="02E3B6A7186E100AB76B1B1E6C59980B" ID-DOI="10.12651/JSR.2021.10.1.001" ID-ISSN="2713-8615" ID-Zenodo-Dep="8119987" IM.bibliography_approvedBy="felipe" IM.illustrations_approvedBy="diego" IM.materialsCitations_approvedBy="felipe" IM.metadata_approvedBy="diego" IM.tables_approvedBy="diego" IM.taxonomicNames_approvedBy="felipe" IM.treatments_approvedBy="diego" checkinTime="1688643489330" checkinUser="felipe" docAuthor="Lee, Jae-Yun, Jeong, Yun-Seok, Kim, Pil Soo & Bae, Dong-Wook Hyun and Jin-Woo" docDate="2021" docId="3411CC53FFF9FFD8FC86152FFD665A5D" docLanguage="en" docName="JSpeciesRes.10.1.1-11.pdf" docOrigin="Journal of Species Research 10 (1)" docStyle="DocumentStyle:4D398BFF45FF8CA9E08F546BB06AE372.1:JSpeciesRes.2012-.journal_article" docStyleId="4D398BFF45FF8CA9E08F546BB06AE372" docStyleName="JSpeciesRes.2012-.journal_article" docStyleVersion="1" docTitle="Lysinibacillus macroides" docType="treatment" docVersion="3" lastPageNumber="6" masterDocId="C828B42BFFFDFFDDFFC11007FFF35C55" masterDocTitle="Isolation and identification of 18 unrecorded prokaryotic species from the intestinal tracts of aquatic animals in Korea" masterLastPageNumber="11" masterPageNumber="1" pageNumber="5" updateTime="1689191107744" updateUser="diego" zenodo-license-document="CC-BY-4.0">
|
|||
|
|
<mods:mods id="0F0498CF52524F93E43BC039CA695AC9" xmlns:mods="http://www.loc.gov/mods/v3">
|
|||
|
|
<mods:titleInfo id="009F2A415163A8CE873D349F6F348495">
|
|||
|
|
<mods:title id="37C18104BA2A63D5E3521652E969E19F">Isolation and identification of 18 unrecorded prokaryotic species from the intestinal tracts of aquatic animals in Korea</mods:title>
|
|||
|
|
</mods:titleInfo>
|
|||
|
|
<mods:name id="27D0137C1C04D1066C2C0A92024A455B" type="personal">
|
|||
|
|
<mods:role id="08DC53FC976CDDD926BD6470709EB391">
|
|||
|
|
<mods:roleTerm id="D4DD8FD3D650EF220F32BE6F4AAF51B2">Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart id="5D2DBCB658143EBE83F6B6A3712A0413">Lee, Jae-Yun</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name id="BCD592B6E520FFEF7159A433E2C6B3DB" type="personal">
|
|||
|
|
<mods:role id="AC722C27D821FACDFDE06C3727113BCE">
|
|||
|
|
<mods:roleTerm id="44DB6827CD552499C365933DC4CCE348">Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart id="8DBE77AB3292F7E23585480C06B01FF8">Jeong, Yun-Seok</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name id="CDDA504124DFF4BBB1FB6B5E27831049" type="personal">
|
|||
|
|
<mods:role id="F2A93AEA02C2BE71DBED87A45CDCC180">
|
|||
|
|
<mods:roleTerm id="8D7558BE1CAEC18F4F5143231E00DDFB">Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart id="D44AC23AF7272A156DE415E372A6D113">Kim, Pil Soo</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name id="CD40D96DA4843729035CF44E0BA3C797" type="personal">
|
|||
|
|
<mods:role id="4AF28268D678A6B9C2D32E7E65BE34E9">
|
|||
|
|
<mods:roleTerm id="A941389969AE08C82B8BFB833D2CAE12">Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart id="49A562FF583947583795072E267EFD78">Bae, Dong-Wook Hyun and Jin-Woo</mods:namePart>
|
|||
|
|
<mods:nameIdentifier id="A6ABDC65319D953E52F9E02D37F84B09" type="email">baejw@khu.ac.kr</mods:nameIdentifier>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:typeOfResource id="76645FFD71A543467E5753804C9B15E8">text</mods:typeOfResource>
|
|||
|
|
<mods:relatedItem id="BBE86E215164B0692C34999090628610" type="host">
|
|||
|
|
<mods:titleInfo id="D82E4801F7FEA7185C6FB870B3734D69">
|
|||
|
|
<mods:title id="A2DBD48D431FFEC1B576A6195845E948">Journal of Species Research</mods:title>
|
|||
|
|
</mods:titleInfo>
|
|||
|
|
<mods:part id="53CC9BE7B945461DDF4984A60F039655">
|
|||
|
|
<mods:date id="8E748A149A388FF7306DC9D776A6B24F">2021</mods:date>
|
|||
|
|
<mods:detail id="3062D4DD6C533965D1484271EA87982B" type="pubDate">
|
|||
|
|
<mods:number id="9C7A33F7D78FA5B0D68AA931797E3C82">2021-02-28</mods:number>
|
|||
|
|
</mods:detail>
|
|||
|
|
<mods:detail id="1CBD95EC1954796677B4F875C1B1F158" type="volume">
|
|||
|
|
<mods:number id="9CA49F6FDE90D34B72C7B4CBB2AFC197">10</mods:number>
|
|||
|
|
</mods:detail>
|
|||
|
|
<mods:detail id="6E6F8DF1DBA85F2BE2AC2E08258EC5DF" type="issue">
|
|||
|
|
<mods:number id="05EF89C30C20E3BF49FB1B9FB10FAD83">1</mods:number>
|
|||
|
|
</mods:detail>
|
|||
|
|
<mods:extent id="93A40F0C1E2A1A22581308491E0C77C6" unit="page">
|
|||
|
|
<mods:start id="333CD85330743290FAB3B84D66AA02BD">1</mods:start>
|
|||
|
|
<mods:end id="F0C6A085B2D86770A28E14E63925A664">11</mods:end>
|
|||
|
|
</mods:extent>
|
|||
|
|
</mods:part>
|
|||
|
|
</mods:relatedItem>
|
|||
|
|
<mods:classification id="40302592ECD364D03D862E9D8D188BCD">journal article</mods:classification>
|
|||
|
|
<mods:identifier id="A2DA102266E117E74D7D979AF8ABD179" type="DOI">10.12651/JSR.2021.10.1.001</mods:identifier>
|
|||
|
|
<mods:identifier id="1F58C7F7362BAF3CAEF8AE3718FED737" type="ISSN">2713-8615</mods:identifier>
|
|||
|
|
<mods:identifier id="DFACC7F4F415318716FA6F5F8FBC3D26" type="Zenodo-Dep">8119987</mods:identifier>
|
|||
|
|
</mods:mods>
|
|||
|
|
<treatment id="3411CC53FFF9FFD8FC86152FFD665A5D" LSID="urn:lsid:plazi:treatment:3411CC53FFF9FFD8FC86152FFD665A5D" httpUri="http://treatment.plazi.org/id/3411CC53FFF9FFD8FC86152FFD665A5D" lastPageId="5" lastPageNumber="6" pageId="4" pageNumber="5">
|
|||
|
|
<subSubSection id="F4A22ECEFFF9FFD8FC86152FFE6E59DD" lastPageId="5" lastPageNumber="6" pageId="4" pageNumber="5" type="nomenclature">
|
|||
|
|
<paragraph id="BC077D45FFF9FFD9FC86152FFABC5915" blockId="4.[839,1359,1320,1344]" box="[839,1359,1320,1344]" pageId="4" pageNumber="5">
|
|||
|
|
<heading id="E74FCA29FFF9FFD9FC86152FFABC5915" box="[839,1359,1320,1344]" fontSize="10" level="2" pageId="4" pageNumber="5" reason="5">
|
|||
|
|
<emphasis id="8ECCA157FFF9FFD9FC86152FFABC5915" bold="true" box="[839,1359,1320,1344]" pageId="4" pageNumber="5">
|
|||
|
|
Description of
|
|||
|
|
<taxonomicName id="7BB806C6FFF9FFD9FC2F152FFB0C5915" ID-CoL="72R3T" ID-ENA="33935" box="[1006,1279,1320,1344]" class="Bacilli" family="Bacillaceae" genus="Lysinibacillus" kingdom="Bacteria" order="Bacillales" pageId="4" pageNumber="5" phylum="Firmicutes" rank="species" species="macroides">
|
|||
|
|
<emphasis id="8ECCA157FFF9FFD9FC2F152FFB0C5915" bold="true" box="[1006,1279,1320,1344]" italics="true" pageId="4" pageNumber="5">Lysinibacillus macroides</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
R13S1
|
|||
|
|
</emphasis>
|
|||
|
|
</heading>
|
|||
|
|
</paragraph>
|
|||
|
|
<paragraph id="BC077D45FFF9FFD8FC9F155EFE6E59DD" blockId="4.[839,1445,1369,1974]" lastBlockId="5.[144,749,1230,1545]" lastPageId="5" lastPageNumber="6" pageId="4" pageNumber="5">
|
|||
|
|
Cells are Gram-stain-positive, flagellated and rod shaped. Colonies are irregular, raised and beige colored on lactobacilli MRS agar medium after 48 h incubation at 30℃. Cells are positive for arginine dihydrolase, protease, esterase (C4), esterase lipase (C8), leucine arylamidase, valine arylamidase, acid phosphatase, naphtholASBIphosphohydrolase (API 20NE/ZYM) and assimilate
|
|||
|
|
<emphasis id="8ECCA157FFF9FFD9FA82161CFAA65A67" box="[1347,1365,1563,1586]" italics="true" pageId="4" pageNumber="5">N</emphasis>
|
|||
|
|
acetylDglucosamine, gluconate, malate, propionate, valerate, Lhistidine, 3hydroxybutyrate, Lproline, acetate, lactate, Lalanine, glycogen, Lserine (API 20NE/ID 32GN). Utilize dextrin, Dmaltose, Dtrehalose, Dcellobiose, gentiobiose, sucrose, D-turanose, stachyose, D-raffinose,
|
|||
|
|
<emphasis id="8ECCA157FFF9FFD9FC8616DAFCAA5AA1" box="[839,857,1757,1780]" italics="true" pageId="4" pageNumber="5">N</emphasis>
|
|||
|
|
glucosamine,
|
|||
|
|
<emphasis id="8ECCA157FFF9FFD9FC3B16DBFBFA5AA1" box="[1018,1033,1756,1780]" italics="true" pageId="4" pageNumber="5">β</emphasis>
|
|||
|
|
mannosamine, Dfructose, Dfucose, Lfucose, Lrhamnose, inosine, Dsorbitol, Dmannitol, Darabitol, glycerol, Dglucose, Dfructose, Daspartic acid, Dserine, gelatin, glycylLproline, Lalanine, Larginine, Laspartic acid, Lglutamic acid, Lhistidine, pyroglutamic acid, Lserine, pectin, galacturonic acid, galactonic lactone, Dgluconic acid, Dglucuronic acid, mucic acid, quinic acid, Dsaccharic acid, phenylacetic acid, methyl pyruvate, Dlactic acid, Llactic acid,
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FD4314E8FD615953" box="[642,658,1263,1286]" italics="true" pageId="5" pageNumber="6">α</emphasis>
|
|||
|
|
glutaric acid, Lmalic acid, Tween40,
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FE1A1508FE195973" box="[475,490,1295,1318]" italics="true" pageId="5" pageNumber="6">γ</emphasis>
|
|||
|
|
butyric acid,
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FD471508FD655973" box="[646,662,1295,1318]" italics="true" pageId="5" pageNumber="6">α</emphasis>
|
|||
|
|
butyric acid,
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FF081528FF2B5912" box="[201,216,1327,1351]" italics="true" pageId="5" pageNumber="6">β</emphasis>
|
|||
|
|
butyric acid,
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FEAB1537FE895912" box="[362,378,1328,1351]" italics="true" pageId="5" pageNumber="6">α</emphasis>
|
|||
|
|
butyric acid, acetoacetic acid, propionic acid, acetic acid and formic acid as sole carbon sources (Biolog GEN III).
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
<caption id="E8C72DCDFFF8FFD8FF4E1400FD8C58DD" ID-DOI="http://doi.org/10.5281/zenodo.8119991" ID-Zenodo-Dep="8119991" httpUri="https://zenodo.org/record/8119991/files/figure.png" pageId="5" pageNumber="6" startId="5.[143,175,1031,1053]" targetBox="[311,1248,257,998]" targetPageId="5" targetType="figure">
|
|||
|
|
<paragraph id="BC077D45FFF8FFD8FF4E1400FD8C58DD" blockId="5.[143,1415,1031,1160]" pageId="5" pageNumber="6">
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FF4E1400FF3F5849" bold="true" box="[143,204,1031,1053]" pageId="5" pageNumber="6">Fig. 3.</emphasis>
|
|||
|
|
The phylogenetic tree based on 16S rRNA gene sequence showing the phylogenetic relatedness between the four isolated strains belonging to the phylum
|
|||
|
|
<taxonomicName id="7BB806C6FFF8FFD8FE961425FE2A586D" authorityName="Cavalier-Smith" authorityYear="2002" box="[343,473,1058,1080]" kingdom="Bacteria" pageId="5" pageNumber="6" phylum="Actinobacteria" rank="phylum">Actinobacteria</taxonomicName>
|
|||
|
|
and the type species from each genus. The tree was mainly reconstructed using the NJ, ML, and MP algorithms. The filled diamonds indicate the branches present in the phylogenetic trees reconstructed with three different tree reconstruction methods. Numbers on the nodes represent bootstrap values with 1000 replicates (NJ/ML/MP).
|
|||
|
|
<taxonomicName id="7BB806C6FFF8FFD8FC40145FFBEF5839" authority="NCTC" authorityName="NCTC" box="[897,1052,1111,1133]" class="Gammaproteobacteria" family="Succinivibrionaceae" genus="Bacteroides" kingdom="Bacteria" order="Aeromonadales" pageId="5" pageNumber="6" phylum="Proteobacteria" rank="species" species="fragilis">
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FC40145FFC295839" box="[897,986,1111,1133]" italics="true" pageId="5" pageNumber="6">B. fragilis</emphasis>
|
|||
|
|
NCTC
|
|||
|
|
</taxonomicName>
|
|||
|
|
9434
|
|||
|
|
<superScript id="4BCDD00DFFF8FFD8FB8C1453FBA55837" attach="left" box="[1101,1110,1108,1122]" fontSize="6" pageId="5" pageNumber="6">T</superScript>
|
|||
|
|
was used as an outgroup. The bar indicates 0.05 accumulated substitutions per nucleotide.
|
|||
|
|
</paragraph>
|
|||
|
|
</caption>
|
|||
|
|
<subSubSection id="F4A22ECEFFF8FFD8FF671597FD665A5D" pageId="5" pageNumber="6" type="description">
|
|||
|
|
<paragraph id="BC077D45FFF8FFD8FF671597FD665A5D" blockId="5.[144,749,1230,1545]" pageId="5" pageNumber="6">
|
|||
|
|
<materialsCitation id="0CD07718FFF8FFD8FF671597FD8F5A5D" collectionCode="R" country="South Korea" county="The" location="Korean" municipality="Yeongwol" pageId="5" pageNumber="6" specimenCode="R13" specimenCount="1" stateProvince="Gangwon">
|
|||
|
|
Strain
|
|||
|
|
<specimenCode id="EC1ED53EFFF8FFD8FF311597FED359FD" box="[240,288,1424,1448]" collectionCode="R" country="Chile" name="Departamento de Geologia, Universidad de Chile" pageId="5" pageNumber="6">R13</specimenCode>
|
|||
|
|
S1 (=NIBRBAC000503078) was isolated from the gut of
|
|||
|
|
<location id="B9672B9EFFF8FFD8FEFB15B7FE745992" LSID="urn:lsid:plazi:treatment:3411CC53FFF9FFD8FC86152FFD665A5D:B9672B9EFFF8FFD8FEFB15B7FE745992" box="[314,391,1456,1479]" country="South Korea" county="The" municipality="Yeongwol" name="Korean" pageId="5" pageNumber="6" stateProvince="Gangwon">Korean</location>
|
|||
|
|
striped bitterling (
|
|||
|
|
<taxonomicName id="7BB806C6FFF8FFD8FD8A15B7FEF559BD" authorityName="Mori" authorityYear="1928" class="Actinopterygii" family="Cyprinidae" genus="Acheilognathus" kingdom="Animalia" order="Cypriniformes" pageId="5" pageNumber="6" phylum="Chordata" rank="species" species="yamatsutae">
|
|||
|
|
<emphasis id="8ECCA157FFF8FFD8FD8A15B7FEF559BD" italics="true" pageId="5" pageNumber="6">Acheilognathus yamatsutae</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
) at
|
|||
|
|
<collectingMunicipality id="5C63E73FFFF8FFD8FEEC15D7FE6959BD" box="[301,410,1488,1512]" pageId="5" pageNumber="6">Yeongwol</collectingMunicipality>
|
|||
|
|
,
|
|||
|
|
<collectingRegion id="7E7CB3A7FFF8FFD8FE6215D7FD9D59BD" box="[419,622,1488,1512]" country="South Korea" name="Gangwon" pageId="5" pageNumber="6">Gangwon Province</collectingRegion>
|
|||
|
|
,
|
|||
|
|
<collectingCountry id="C4AF3DD5FFF8FFD8FDB915D6FD4859BD" box="[632,699,1489,1512]" name="South Korea" pageId="5" pageNumber="6">Korea</collectingCountry>
|
|||
|
|
.
|
|||
|
|
<collectingCounty id="556605C9FFF8FFD8FD0515D7FD1E59BD" box="[708,749,1488,1512]" pageId="5" pageNumber="6">The</collectingCounty>
|
|||
|
|
DNA G + C content of the
|
|||
|
|
<typeStatus id="6303C3E7FFF8FFD8FE6615F6FE275A5C" box="[423,468,1521,1545]" pageId="5" pageNumber="6">type</typeStatus>
|
|||
|
|
strain is 38 mol
|
|||
|
|
</materialsCitation>
|
|||
|
|
%.
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
</treatment>
|
|||
|
|
</document>
|