167 lines
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167 lines
12 KiB
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<document ID-DOI="10.1093/gbe/evaa212" ID-GBIF-Dataset="f572993a-25e4-44bf-80f8-2b9075a81a29" ID-PMC="PMC7846144" ID-PubMed="33022031" ID-Zenodo-Dep="4561628" approvalRequired="5" approvalRequired_for_document="1" approvalRequired_for_textStreams="4" checkinTime="1614243439518" checkinUser="donat" docAuthor="Chambers, James, Sparks, Natalie, Sydney, Natashia, Livingstone, Paul G, Cookson, Alan R & Whitworth, David E" docDate="2020" docId="03A729036472D737FF37FBBFFE000DE8" docLanguage="en" docName="genomeBioEvol.evaa212.pdf" docOrigin="Genome Biology and Evolution 12 (12)" docSource="http://dx.doi.org/10.1093/gbe/evaa212" docTitle="Pyxidicoccus trucidator Chambers & Sparks & Sydney & Livingstone & Cookson & Whitworth 2020, sp. nov." docType="treatment" docVersion="5" lastPageNumber="2301" masterDocId="FF9E517B647ED73BFFBDFFC1FFC10B09" masterDocTitle="Comparative Genomics and Pan-Genomics of the Myxococcaceae, including a Description of Five Novel Species: Myxococcus eversor sp. nov., Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis sp. nov., Myxococcus vastator sp. nov., Pyxidicoccus caerfyrddinensis sp. nov., and Pyxidicoccus trucidator sp. nov." masterLastPageNumber="2302" masterPageNumber="2289" pageNumber="2301" updateTime="1668128921393" updateUser="ExternalLinkService" zenodo-license-document="CC-BY-4.0" zenodo-license-treatments="CC0-1.0">
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<mods:mods xmlns:mods="http://www.loc.gov/mods/v3">
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<mods:titleInfo>
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<mods:title>Comparative Genomics and Pan-Genomics of the Myxococcaceae, including a Description of Five Novel Species: Myxococcus eversor sp. nov., Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis sp. nov., Myxococcus vastator sp. nov., Pyxidicoccus caerfyrddinensis sp. nov., and Pyxidicoccus trucidator sp. nov.</mods:title>
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</mods:titleInfo>
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<mods:name type="personal">
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<mods:role>
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<mods:roleTerm>Author</mods:roleTerm>
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</mods:role>
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<mods:namePart>Chambers, James</mods:namePart>
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</mods:name>
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<mods:name type="personal">
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<mods:role>
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<mods:roleTerm>Author</mods:roleTerm>
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</mods:role>
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<mods:namePart>Sparks, Natalie</mods:namePart>
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</mods:name>
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<mods:name type="personal">
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<mods:role>
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<mods:roleTerm>Author</mods:roleTerm>
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</mods:role>
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<mods:namePart>Sydney, Natashia</mods:namePart>
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</mods:name>
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<mods:name type="personal">
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<mods:role>
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<mods:roleTerm>Author</mods:roleTerm>
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</mods:role>
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<mods:namePart>Livingstone, Paul G</mods:namePart>
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</mods:name>
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<mods:name type="personal">
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<mods:role>
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<mods:roleTerm>Author</mods:roleTerm>
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</mods:role>
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<mods:namePart>Cookson, Alan R</mods:namePart>
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</mods:name>
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<mods:name type="personal">
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<mods:role>
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<mods:roleTerm>Author</mods:roleTerm>
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</mods:role>
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<mods:namePart>Whitworth, David E</mods:namePart>
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</mods:name>
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<mods:typeOfResource>text</mods:typeOfResource>
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<mods:relatedItem type="host">
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<mods:titleInfo>
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<mods:title>Genome Biology and Evolution</mods:title>
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</mods:titleInfo>
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<mods:part>
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<mods:date>2020</mods:date>
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<mods:detail type="pubDate">
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<mods:number>2020-10-06</mods:number>
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</mods:detail>
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<mods:detail type="volume">
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<mods:number>12</mods:number>
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</mods:detail>
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<mods:detail type="issue">
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<mods:number>12</mods:number>
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</mods:detail>
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<mods:extent unit="page">
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<mods:start>2289</mods:start>
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<mods:end>2302</mods:end>
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</mods:extent>
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</mods:part>
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</mods:relatedItem>
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<mods:location>
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<mods:url>http://dx.doi.org/10.1093/gbe/evaa212</mods:url>
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</mods:location>
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<mods:classification>journal article</mods:classification>
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<mods:identifier type="DOI">10.1093/gbe/evaa212</mods:identifier>
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<mods:identifier type="GBIF-Dataset">f572993a-25e4-44bf-80f8-2b9075a81a29</mods:identifier>
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<mods:identifier type="PMC">PMC7846144</mods:identifier>
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<mods:identifier type="PubMed">33022031</mods:identifier>
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<mods:identifier type="Zenodo-Dep">4561628</mods:identifier>
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</mods:mods>
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<treatment ID-DOI="http://doi.org/10.5281/zenodo.4561651" ID-GBIF-Taxon="179910683" ID-Zenodo-Dep="4561651" LSID="urn:lsid:plazi:treatment:03A729036472D737FF37FBBFFE000DE8" httpUri="http://treatment.plazi.org/id/03A729036472D737FF37FBBFFE000DE8" lastPageNumber="2301" pageId="12" pageNumber="2301">
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<subSubSection box="[138,477,1150,1174]" pageId="12" pageNumber="2301" type="nomenclature">
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<paragraph blockId="12.[138,477,1150,1174]" box="[138,477,1150,1174]" pageId="12" pageNumber="2301">
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<taxonomicName authority="Chambers & Sparks & Sydney & Livingstone & Cookson & Whitworth, 2020" authorityName="Chambers & Sparks & Sydney & Livingstone & Cookson & Whitworth" authorityYear="2020" box="[138,383,1150,1174]" class="Deltaproteobacteria" family="Myxococcaceae" genus="Pyxidicoccus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Myxococcales" pageId="12" pageNumber="2301" phylum="Proteobacteria" rank="species" species="trucidator" status="sp. nov.">
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<emphasis box="[138,383,1150,1174]" italics="true" pageId="12" pageNumber="2301">Pyxidicoccus trucidator</emphasis>
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</taxonomicName>
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<taxonomicNameLabel box="[390,477,1150,1174]" pageId="12" pageNumber="2301" rank="species">sp. nov.</taxonomicNameLabel>
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</paragraph>
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</subSubSection>
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<subSubSection pageId="12" pageNumber="2301" type="etymology">
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<paragraph blockId="12.[138,772,1194,1761]" pageId="12" pageNumber="2301">
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<taxonomicName authorityName="Chambers & Sparks & Sydney & Livingstone & Cookson & Whitworth" authorityYear="2020" box="[138,369,1194,1217]" class="Deltaproteobacteria" family="Myxococcaceae" genus="Pyxidicoccus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Myxococcales" pageId="12" pageNumber="2301" phylum="Proteobacteria" rank="species" species="trucidator">
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<emphasis box="[138,369,1194,1217]" italics="true" pageId="12" pageNumber="2301">Pyxidicoccus trucidator</emphasis>
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</taxonomicName>
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(tru.ci’da.tor L. masc. n.
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<taxonomicName authorityName="Chambers & Sparks & Sydney & Livingstone & Cookson & Whitworth" authorityYear="2020" box="[627,726,1194,1217]" class="Deltaproteobacteria" family="Myxococcaceae" genus="Pyxidicoccus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Myxococcales" pageId="12" pageNumber="2301" phylum="Proteobacteria" rank="species" species="trucidator">
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<emphasis box="[627,726,1194,1217]" italics="true" pageId="12" pageNumber="2301">trucidator</emphasis>
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</taxonomicName>
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the slaughterer, after its widespread cytotoxicity).
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</paragraph>
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</subSubSection>
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<subSubSection pageId="12" pageNumber="2301" type="description">
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<paragraph blockId="12.[138,772,1194,1761]" pageId="12" pageNumber="2301">
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Vegetative cells are Gram-negative bacilli tapering slightly at the ends, measuring
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<quantity box="[382,479,1290,1314]" metricMagnitude="-1" metricUnit="m" metricValue="5.5" metricValueMax="6.0" metricValueMin="5.0" pageId="12" pageNumber="2301" unit="m" value="0.55" valueMax="0.6" valueMin="0.5">
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0.5–0.6
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<emphasis bold="true" box="[466,479,1290,1314]" pageId="12" pageNumber="2301">m</emphasis>
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</quantity>
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m 3.0–6.0
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<emphasis bold="true" box="[616,629,1290,1314]" pageId="12" pageNumber="2301">m</emphasis>
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m in electron micrographs. Colonies exhibit swarming motility and appear pale brown on VY-2 agar (w/v 0.5% dried baker’s yeast, 0.1% CaCl
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<subScript attach="left" box="[253,263,1396,1411]" fontSize="6" pageId="12" pageNumber="2301">2</subScript>
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2H
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<subScript attach="right" box="[300,310,1396,1411]" fontSize="6" pageId="12" pageNumber="2301">2</subScript>
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O, and 1.5% agar). Fruiting bodies are irregular spheroids, orange in color. Aerobic growth was observed at 30–37 C, at pH 6.0–9.0, and in 0–1% NaCl. Hydrolyzes arginine, esculin, gelatin,
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<emphasis box="[425,438,1482,1505]" italics="true" pageId="12" pageNumber="2301">p</emphasis>
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-nitrophenyl-
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<emphasis box="[571,585,1483,1506]" italics="true" pageId="12" pageNumber="2301">B</emphasis>
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-D- galactopyranoside, and urea. Cells prey with low efficiency upon
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<taxonomicName authority="TOP" authorityName="TOP" class="Gammaproteobacteria" family="Enterobacteriaceae" genus="Escherichia" kingdom="Bacteria" order="Enterobacteriales" pageId="12" pageNumber="2301" phylum="Proteobacteria" rank="species" species="coli">
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<emphasis box="[702,767,1514,1537]" italics="true" pageId="12" pageNumber="2301">E. coli</emphasis>
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TOP
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</taxonomicName>
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10,
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<taxonomicName authority="DSM" authorityName="DSM" box="[226,459,1546,1569]" family="Microbacteriaceae" genus="Clavibacter" kingdom="Bacteria" order="Actinomycetales" pageId="12" pageNumber="2301" phylum="Actinobacteria" rank="species" species="nebraskensis">
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<emphasis box="[226,395,1546,1569]" italics="true" pageId="12" pageNumber="2301">Cl. nebraskensis</emphasis>
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DSM
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</taxonomicName>
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7483, and
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<taxonomicName authority="DSM" authorityName="DSM" box="[596,766,1546,1569]" class="Ustilaginomycetes" family="Ustilaginaceae" genus="Ustilago" kingdom="Chromista" order="Ustilaginales" pageId="12" pageNumber="2301" phylum="Basidiomycota" rank="species" species="maydis">
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<emphasis box="[596,703,1546,1569]" italics="true" pageId="12" pageNumber="2301">U. maydis</emphasis>
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<accessionNumber httpUri="http://www.ncbi.nlm.nih.gov/protein/DSM14603" pageId="12" pageNumber="2301">DSM 14603</accessionNumber>
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</taxonomicName>
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.
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</paragraph>
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<paragraph blockId="12.[138,772,1194,1761]" pageId="12" pageNumber="2301">
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DNA
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<collectionCode box="[229,264,1610,1633]" country="0" name="Goucher College" pageId="12" pageNumber="2301">GC</collectionCode>
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content is 70.3 mol%. The draft genome sequence of
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<specimenCode box="[259,332,1642,1665]" collectionCode="CA" country="USA" name="Chicago Academy of Sciences" pageId="12" pageNumber="2301" type="Museum">CA060</specimenCode>
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A
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<superScript attach="left" box="[348,357,1637,1652]" fontSize="6" pageId="12" pageNumber="2301">
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<collectionCode box="[348,357,1637,1652]" name="Tavera, Department of Geology and Geophysics" pageId="12" pageNumber="2301">T</collectionCode>
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</superScript>
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is available from GenBank (accession JAAIXZ01).
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<materialsCitation ID-GBIF-Occurrence="3042655304" collectedFrom="isolated from soil" collectionCode="GC, T" country="United Kingdom" latitude="51.77" location="Llansteffan" longLatPrecision="652" longitude="-4.39" pageId="12" pageNumber="2301" specimenCode="CA060" specimenCount="1" typeStatus="type strain">
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The
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<typeStatus box="[309,420,1674,1697]" pageId="12" pageNumber="2301">type strain</typeStatus>
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(
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<specimenCode box="[435,509,1674,1697]" collectionCode="CA" country="USA" name="Chicago Academy of Sciences" pageId="12" pageNumber="2301" type="Museum">CA060</specimenCode>
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A
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<superScript attach="left" box="[526,535,1668,1683]" fontSize="6" pageId="12" pageNumber="2301">T</superScript>
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<emphasis bold="true" box="[545,570,1673,1697]" pageId="12" pageNumber="2301">¼</emphasis>
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NCCB 100777
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<superScript attach="left" box="[728,737,1668,1683]" fontSize="6" pageId="12" pageNumber="2301">T</superScript>
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<emphasis bold="true" box="[747,772,1673,1697]" pageId="12" pageNumber="2301">¼</emphasis>
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NBRC 114505
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<superScript attach="none" box="[284,293,1700,1715]" fontSize="6" pageId="12" pageNumber="2301">T</superScript>
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) was
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<collectedFrom box="[351,522,1706,1729]" pageId="12" pageNumber="2301">isolated from soil</collectedFrom>
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collected in
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<location LSID="urn:lsid:plazi:treatment:03A729036472D737FF37FBBFFE000DE8:8ED1CECE6472D737FD3AF96BFD3D0DC8" box="[647,764,1706,1729]" country="United Kingdom" latitude="51.77" longLatPrecision="652" longitude="-4.39" name="Llansteffan" pageId="12" pageNumber="2301">Llansteffan</location>
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,
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<collectingCountry box="[138,170,1738,1761]" name="United Kingdom" pageId="12" pageNumber="2301">UK</collectingCountry>
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(gridref
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<geoCoordinate box="[259,347,1738,1761]" degrees="51.77" direction="north" orientation="latitude" pageId="12" pageNumber="2301" precision="555" value="51.77">51.77 N</geoCoordinate>
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<geoCoordinate box="[354,438,1738,1761]" degrees="4.39" direction="west" orientation="longitude" pageId="12" pageNumber="2301" precision="555" value="-4.39">4.39 W</geoCoordinate>
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)
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</materialsCitation>
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.
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</paragraph>
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</subSubSection>
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</treatment>
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</document>
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