169 lines
12 KiB
XML
169 lines
12 KiB
XML
|
<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="03A729036475D730FC81FEBBFC5A0FF4" docLanguage="en" docName="genomeBioEvol.evaa212.pdf" docOrigin="Genome Biology and Evolution 12 (12)" docSource="http://dx.doi.org/10.1093/gbe/evaa212" docTitle="Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis Chambers, Sparks, Sydney, Livingstone, Cookson & Whitworth, 2020, sp. nov." docType="treatment" docVersion="6" lastPageNumber="2300" 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="2300" updateTime="1668128921393" updateUser="ExternalLinkService" zenodo-license-document="CC-BY-4.0" zenodo-license-treatments="CC0-1.0">
|
|||
|
|
<mods:mods xmlns:mods="http://www.loc.gov/mods/v3">
|
|||
|
|
<mods:titleInfo>
|
|||
|
|
<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>
|
|||
|
|
</mods:titleInfo>
|
|||
|
|
<mods:name type="personal">
|
|||
|
|
<mods:role>
|
|||
|
|
<mods:roleTerm>Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart>Chambers, James</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name type="personal">
|
|||
|
|
<mods:role>
|
|||
|
|
<mods:roleTerm>Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart>Sparks, Natalie</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name type="personal">
|
|||
|
|
<mods:role>
|
|||
|
|
<mods:roleTerm>Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart>Sydney, Natashia</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name type="personal">
|
|||
|
|
<mods:role>
|
|||
|
|
<mods:roleTerm>Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart>Livingstone, Paul G</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name type="personal">
|
|||
|
|
<mods:role>
|
|||
|
|
<mods:roleTerm>Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart>Cookson, Alan R</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:name type="personal">
|
|||
|
|
<mods:role>
|
|||
|
|
<mods:roleTerm>Author</mods:roleTerm>
|
|||
|
|
</mods:role>
|
|||
|
|
<mods:namePart>Whitworth, David E</mods:namePart>
|
|||
|
|
</mods:name>
|
|||
|
|
<mods:typeOfResource>text</mods:typeOfResource>
|
|||
|
|
<mods:relatedItem type="host">
|
|||
|
|
<mods:titleInfo>
|
|||
|
|
<mods:title>Genome Biology and Evolution</mods:title>
|
|||
|
|
</mods:titleInfo>
|
|||
|
|
<mods:part>
|
|||
|
|
<mods:date>2020</mods:date>
|
|||
|
|
<mods:detail type="pubDate">
|
|||
|
|
<mods:number>2020-10-06</mods:number>
|
|||
|
|
</mods:detail>
|
|||
|
|
<mods:detail type="volume">
|
|||
|
|
<mods:number>12</mods:number>
|
|||
|
|
</mods:detail>
|
|||
|
|
<mods:detail type="issue">
|
|||
|
|
<mods:number>12</mods:number>
|
|||
|
|
</mods:detail>
|
|||
|
|
<mods:extent unit="page">
|
|||
|
|
<mods:start>2289</mods:start>
|
|||
|
|
<mods:end>2302</mods:end>
|
|||
|
|
</mods:extent>
|
|||
|
|
</mods:part>
|
|||
|
|
</mods:relatedItem>
|
|||
|
|
<mods:location>
|
|||
|
|
<mods:url>http://dx.doi.org/10.1093/gbe/evaa212</mods:url>
|
|||
|
|
</mods:location>
|
|||
|
|
<mods:classification>journal article</mods:classification>
|
|||
|
|
<mods:identifier type="DOI">10.1093/gbe/evaa212</mods:identifier>
|
|||
|
|
<mods:identifier type="GBIF-Dataset">f572993a-25e4-44bf-80f8-2b9075a81a29</mods:identifier>
|
|||
|
|
<mods:identifier type="PMC">PMC7846144</mods:identifier>
|
|||
|
|
<mods:identifier type="PubMed">33022031</mods:identifier>
|
|||
|
|
<mods:identifier type="Zenodo-Dep">4561628</mods:identifier>
|
|||
|
|
</mods:mods>
|
|||
|
|
<treatment ID-DOI="http://doi.org/10.5281/zenodo.4561645" ID-GBIF-Taxon="179910680" ID-Zenodo-Dep="4561645" LSID="urn:lsid:plazi:treatment:03A729036475D730FC81FEBBFC5A0FF4" httpUri="http://treatment.plazi.org/id/03A729036475D730FC81FEBBFC5A0FF4" lastPageNumber="2300" pageId="11" pageNumber="2300">
|
|||
|
|
<subSubSection pageId="11" pageNumber="2300" type="nomenclature">
|
|||
|
|
<paragraph blockId="11.[828,1388,378,434]" pageId="11" pageNumber="2300">
|
|||
|
|
<taxonomicName class="Deltaproteobacteria" family="Myxococcaceae" genus="Myxococcus" kingdom="Bacteria" order="Myxococcales" pageId="11" pageNumber="2300" phylum="Proteobacteria" rank="species" species="llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis">
|
|||
|
|
<emphasis italics="true" pageId="11" pageNumber="2300">Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
<taxonomicNameLabel box="[1301,1388,410,434]" pageId="11" pageNumber="2300" rank="species">sp. nov.</taxonomicNameLabel>
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
<subSubSection pageId="11" pageNumber="2300" type="etymology">
|
|||
|
|
<paragraph blockId="11.[828,1457,454,1277]" pageId="11" pageNumber="2300">
|
|||
|
|
<taxonomicName authorityName="Chambers & Sparks & Sydney & Livingstone & Cookson & Whitworth" authorityYear="2020" class="Deltaproteobacteria" family="Myxococcaceae" genus="Myxococcus" kingdom="Bacteria" order="Myxococcales" pageId="11" pageNumber="2300" phylum="Proteobacteria" rank="species" species="llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis">
|
|||
|
|
<emphasis italics="true" pageId="11" pageNumber="2300">Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
, (llan.fair.pwll.gwyn.gyll.gog.er.ych.wyrn.dro.bwllll.ant.ysil.iog.ogogoch.en’sis. N.L. masc. adj. llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogo chensis, pertaining to llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogoch, reflecting its isolation from soil collected in that parish [gridref
|
|||
|
|
<geoCoordinate box="[1164,1254,646,669]" degrees="53.22" direction="north" orientation="latitude" pageId="11" pageNumber="2300" precision="555" value="53.22">53.22 N</geoCoordinate>
|
|||
|
|
<geoCoordinate box="[1261,1349,646,669]" degrees="4.19" direction="west" orientation="longitude" pageId="11" pageNumber="2300" precision="555" value="-4.19">4.19 W</geoCoordinate>
|
|||
|
|
]).
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
<paragraph blockId="11.[828,1457,454,1277]" pageId="11" pageNumber="2300">
|
|||
|
|
<subSubSection pageId="11" pageNumber="2300" type="description">
|
|||
|
|
Vegetative cells are Gram-negative bacilli tapering slightly at the ends, measuring
|
|||
|
|
<quantity box="[1072,1168,709,733]" metricMagnitude="-1" metricUnit="m" metricValue="5.0" metricValueMax="6.0" metricValueMin="4.0" pageId="11" pageNumber="2300" unit="m" value="0.5" valueMax="0.6" valueMin="0.4">
|
|||
|
|
0.4–0.6
|
|||
|
|
<emphasis bold="true" box="[1155,1168,709,733]" pageId="11" pageNumber="2300">m</emphasis>
|
|||
|
|
</quantity>
|
|||
|
|
m 4.0–7.0
|
|||
|
|
<emphasis bold="true" box="[1306,1319,709,733]" pageId="11" pageNumber="2300">m</emphasis>
|
|||
|
|
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
|
|||
|
|
<subScript attach="left" box="[947,957,816,831]" fontSize="6" pageId="11" pageNumber="2300">2</subScript>
|
|||
|
|
2H
|
|||
|
|
<subScript attach="both" box="[993,1003,816,831]" fontSize="6" pageId="11" pageNumber="2300">2</subScript>
|
|||
|
|
O, and 1.5% agar). Fruiting bodies are irregular spheroids, orange in color. Aerobic growth was observed at 30 and 35 C and at pH 5.0–9.0. Growth was unaffected by the addition of 1–4% NaCl. Hydrolyzes esculin, gelatin,
|
|||
|
|
<emphasis box="[959,972,934,957]" italics="true" pageId="11" pageNumber="2300">p</emphasis>
|
|||
|
|
-nitrophenyl-
|
|||
|
|
<emphasis box="[1105,1119,934,957]" italics="true" pageId="11" pageNumber="2300">B</emphasis>
|
|||
|
|
-D- galactopyranoside, and urea. Assimilates
|
|||
|
|
<emphasis box="[955,971,966,989]" italics="true" pageId="11" pageNumber="2300">N</emphasis>
|
|||
|
|
-acetyl-glucosamine, adipate, arabinose, glucose, malate, maltose, mannitol, mannose, and phenyl acetate. Cells prey with low efficiency upon
|
|||
|
|
<taxonomicName authority="TOP" authorityName="TOP" box="[1299,1430,1030,1053]" class="Gammaproteobacteria" family="Enterobacteriaceae" genus="Escherichia" kingdom="Bacteria" order="Enterobacteriales" pageId="11" pageNumber="2300" phylum="Proteobacteria" rank="species" species="coli">
|
|||
|
|
<emphasis box="[1299,1367,1030,1053]" italics="true" pageId="11" pageNumber="2300">E. coli</emphasis>
|
|||
|
|
TOP
|
|||
|
|
</taxonomicName>
|
|||
|
|
10,
|
|||
|
|
<taxonomicName authority="DSM" authorityName="DSM" box="[828,1047,1062,1085]" family="Microbacteriaceae" genus="Clavibacter" kingdom="Bacteria" order="Actinomycetales" pageId="11" pageNumber="2300" phylum="Actinobacteria" rank="species" species="nebraskensis">
|
|||
|
|
<emphasis box="[828,990,1062,1085]" italics="true" pageId="11" pageNumber="2300">Cl. nebraskensis</emphasis>
|
|||
|
|
DSM
|
|||
|
|
</taxonomicName>
|
|||
|
|
7483, and
|
|||
|
|
<taxonomicName box="[1166,1267,1062,1085]" class="Ustilaginomycetes" family="Ustilaginaceae" genus="Ustilago" kingdom="Chromista" order="Ustilaginales" pageId="11" pageNumber="2300" phylum="Basidiomycota" rank="species" species="maydis">
|
|||
|
|
<emphasis box="[1166,1267,1062,1085]" italics="true" pageId="11" pageNumber="2300">U. maydis</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
. DNA
|
|||
|
|
<collectionCode box="[1335,1370,1062,1085]" country="0" name="Goucher College" pageId="11" pageNumber="2300">GC</collectionCode>
|
|||
|
|
content is 68.7 mol%. The draft genome sequence of
|
|||
|
|
<collectionCode box="[1341,1380,1094,1117]" country="Australia" name="Australian Museum" pageId="11" pageNumber="2300" type="Museum">AM</collectionCode>
|
|||
|
|
401
|
|||
|
|
<superScript attach="left" box="[1420,1429,1088,1103]" fontSize="6" pageId="11" pageNumber="2300">
|
|||
|
|
<collectionCode box="[1420,1429,1088,1103]" name="Tavera, Department of Geology and Geophysics" pageId="11" pageNumber="2300">T</collectionCode>
|
|||
|
|
</superScript>
|
|||
|
|
is available from GenBank (accession
|
|||
|
|
<collectionCode box="[1198,1260,1126,1149]" pageId="11" pageNumber="2300">VIFM</collectionCode>
|
|||
|
|
01).
|
|||
|
|
</subSubSection>
|
|||
|
|
<subSubSection pageId="11" pageNumber="2300" type="materials_examined">
|
|||
|
|
<materialsCitation ID-GBIF-Occurrence="3042655303" collectedFrom="from soil collected" collectionCode="AM" country="United Kingdom" latitude="53.22" location="parish of Llanfairpwllgwyngyllgo gerychwyrndrobwllllantysiliogogogoch" longLatPrecision="647" longitude="-4.19" pageId="11" pageNumber="2300" specimenCode="AM401T" specimenCount="1" typeStatus="type strain">
|
|||
|
|
The
|
|||
|
|
<typeStatus box="[1346,1455,1126,1149]" pageId="11" pageNumber="2300">type strain</typeStatus>
|
|||
|
|
(
|
|||
|
|
<specimenCode box="[834,922,1152,1181]" pageId="11" pageNumber="2300">
|
|||
|
|
AM401
|
|||
|
|
<superScript attach="left" box="[913,922,1152,1167]" fontSize="6" pageId="11" pageNumber="2300">T</superScript>
|
|||
|
|
</specimenCode>
|
|||
|
|
<emphasis bold="true" box="[931,956,1157,1181]" pageId="11" pageNumber="2300">¼</emphasis>
|
|||
|
|
NBRC 114351
|
|||
|
|
<superScript attach="left" box="[1108,1117,1152,1167]" fontSize="6" pageId="11" pageNumber="2300">T</superScript>
|
|||
|
|
<emphasis bold="true" box="[1126,1151,1157,1181]" pageId="11" pageNumber="2300">¼</emphasis>
|
|||
|
|
NBBC 100770
|
|||
|
|
<superScript attach="none" box="[1303,1312,1152,1167]" fontSize="6" pageId="11" pageNumber="2300">T</superScript>
|
|||
|
|
) was isolated
|
|||
|
|
<collectedFrom box="[828,1025,1190,1213]" pageId="11" pageNumber="2300">from soil collected</collectedFrom>
|
|||
|
|
in the
|
|||
|
|
<location LSID="urn:lsid:plazi:treatment:03A729036475D730FC81FEBBFC5A0FF4:8ED1CECE6475D730FBE4FB67FB0D0FD4" country="United Kingdom" latitude="53.22" longLatPrecision="647" longitude="-4.19" name="parish of Llanfairpwllgwyngyllgo gerychwyrndrobwllllantysiliogogogoch" pageId="11" pageNumber="2300">parish of Llanfairpwllgwyngyllgo gerychwyrndrobwllllantysiliogogogoch</location>
|
|||
|
|
,
|
|||
|
|
<collectingCountry box="[1240,1272,1222,1245]" name="United Kingdom" pageId="11" pageNumber="2300">UK</collectingCountry>
|
|||
|
|
(gridref
|
|||
|
|
<geoCoordinate box="[1368,1456,1222,1245]" degrees="53.22" direction="north" orientation="latitude" pageId="11" pageNumber="2300" precision="555" value="53.22">53.22 N</geoCoordinate>
|
|||
|
|
<geoCoordinate box="[828,912,1254,1277]" degrees="4.19" direction="west" orientation="longitude" pageId="11" pageNumber="2300" precision="555" value="-4.19">4.19 W</geoCoordinate>
|
|||
|
|
)
|
|||
|
|
</materialsCitation>
|
|||
|
|
.
|
|||
|
|
</subSubSection>
|
|||
|
|
</paragraph>
|
|||
|
|
</treatment>
|
|||
|
|
</document>
|