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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Genome Sequence of <italic>Rickettsia gravesii</italic>
, Isolated from Western Australian Ticks</title>
<author><name sortKey="Sentausa, Erwin" sort="Sentausa, Erwin" uniqKey="Sentausa E" first="Erwin" last="Sentausa">Erwin Sentausa</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Abdad, Mohammad Yazid" sort="Abdad, Mohammad Yazid" uniqKey="Abdad M" first="Mohammad Yazid" last="Abdad">Mohammad Yazid Abdad</name>
<affiliation><nlm:aff id="aff2"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Robert, Catherine" sort="Robert, Catherine" uniqKey="Robert C" first="Catherine" last="Robert">Catherine Robert</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Stenos, John" sort="Stenos, John" uniqKey="Stenos J" first="John" last="Stenos">John Stenos</name>
<affiliation><nlm:aff id="aff2"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Raoult, Didier" sort="Raoult, Didier" uniqKey="Raoult D" first="Didier" last="Raoult">Didier Raoult</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Fournier, Pierre Edouard" sort="Fournier, Pierre Edouard" uniqKey="Fournier P" first="Pierre-Edouard" last="Fournier">Pierre-Edouard Fournier</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">24285646</idno>
<idno type="pmc">3869331</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3869331</idno>
<idno type="RBID">PMC:3869331</idno>
<idno type="doi">10.1128/genomeA.00975-13</idno>
<date when="2013">2013</date>
<idno type="wicri:Area/Pmc/Corpus">001248</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">001248</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Genome Sequence of <italic>Rickettsia gravesii</italic>
, Isolated from Western Australian Ticks</title>
<author><name sortKey="Sentausa, Erwin" sort="Sentausa, Erwin" uniqKey="Sentausa E" first="Erwin" last="Sentausa">Erwin Sentausa</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Abdad, Mohammad Yazid" sort="Abdad, Mohammad Yazid" uniqKey="Abdad M" first="Mohammad Yazid" last="Abdad">Mohammad Yazid Abdad</name>
<affiliation><nlm:aff id="aff2"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Robert, Catherine" sort="Robert, Catherine" uniqKey="Robert C" first="Catherine" last="Robert">Catherine Robert</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Stenos, John" sort="Stenos, John" uniqKey="Stenos J" first="John" last="Stenos">John Stenos</name>
<affiliation><nlm:aff id="aff2"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Raoult, Didier" sort="Raoult, Didier" uniqKey="Raoult D" first="Didier" last="Raoult">Didier Raoult</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
<author><name sortKey="Fournier, Pierre Edouard" sort="Fournier, Pierre Edouard" uniqKey="Fournier P" first="Pierre-Edouard" last="Fournier">Pierre-Edouard Fournier</name>
<affiliation><nlm:aff id="aff1"></nlm:aff>
</affiliation>
</author>
</analytic>
<series><title level="j">Genome Announcements</title>
<idno type="eISSN">2169-8287</idno>
<imprint><date when="2013">2013</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"><p><italic>Rickettsia gravesii</italic>
 is a new <italic>Rickettsia</italic>
 species closely related to the human pathogen <italic>Rickettsia massiliae</italic>
. Here, we describe the genome sequence of <italic>R. gravesii</italic>
 strain BWI-1, isolated from <italic>Amblyomma triguttatum triguttatum</italic>
 ticks collected from humans on Barrow Island, Western Australia.</p>
</div>
</front>
<back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Owen, H" uniqKey="Owen H">H Owen</name>
</author>
<author><name sortKey="Unsworth, N" uniqKey="Unsworth N">N Unsworth</name>
</author>
<author><name sortKey="Stenos, J" uniqKey="Stenos J">J Stenos</name>
</author>
<author><name sortKey="Robertson, I" uniqKey="Robertson I">I Robertson</name>
</author>
<author><name sortKey="Clark, P" uniqKey="Clark P">P Clark</name>
</author>
<author><name sortKey="Fenwick, S" uniqKey="Fenwick S">S Fenwick</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Graves, S" uniqKey="Graves S">S Graves</name>
</author>
<author><name sortKey="Stenos, J" uniqKey="Stenos J">J Stenos</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Owen, H" uniqKey="Owen H">H Owen</name>
</author>
<author><name sortKey="Clark, P" uniqKey="Clark P">P Clark</name>
</author>
<author><name sortKey="Stenos, J" uniqKey="Stenos J">J Stenos</name>
</author>
<author><name sortKey="Robertson, I" uniqKey="Robertson I">I Robertson</name>
</author>
<author><name sortKey="Fenwick, S" uniqKey="Fenwick S">S Fenwick</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Li, Ay" uniqKey="Li A">AY Li</name>
</author>
<author><name sortKey="Adams, Pj" uniqKey="Adams P">PJ Adams</name>
</author>
<author><name sortKey="Abdad, My" uniqKey="Abdad M">MY Abdad</name>
</author>
<author><name sortKey="Fenwick, Sg" uniqKey="Fenwick S">SG Fenwick</name>
</author>
</analytic>
</biblStruct>
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</author>
<author><name sortKey="Parola, P" uniqKey="Parola P">P Parola</name>
</author>
<author><name sortKey="Fournier, Pe" uniqKey="Fournier P">PE Fournier</name>
</author>
<author><name sortKey="Raoult, D" uniqKey="Raoult D">D Raoult</name>
</author>
</analytic>
</biblStruct>
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</author>
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</author>
</analytic>
</biblStruct>
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</author>
<author><name sortKey="Mau, B" uniqKey="Mau B">B Mau</name>
</author>
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</author>
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</author>
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</analytic>
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<biblStruct><analytic><author><name sortKey="Blanc, G" uniqKey="Blanc G">G Blanc</name>
</author>
<author><name sortKey="Ogata, H" uniqKey="Ogata H">H Ogata</name>
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<author><name sortKey="Robert, C" uniqKey="Robert C">C Robert</name>
</author>
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</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Aziz, Rk" uniqKey="Aziz R">RK Aziz</name>
</author>
<author><name sortKey="Bartels, D" uniqKey="Bartels D">D Bartels</name>
</author>
<author><name sortKey="Best, Aa" uniqKey="Best A">AA Best</name>
</author>
<author><name sortKey="Dejongh, M" uniqKey="Dejongh M">M DeJongh</name>
</author>
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</author>
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</author>
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</author>
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</author>
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</author>
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</author>
<author><name sortKey="Olson, R" uniqKey="Olson R">R Olson</name>
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</author>
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</author>
<author><name sortKey="Mcneil, Lk" uniqKey="Mcneil L">LK McNeil</name>
</author>
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</author>
<author><name sortKey="Paczian, T" uniqKey="Paczian T">T Paczian</name>
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<biblStruct><analytic><author><name sortKey="Altschul, Sf" uniqKey="Altschul S">SF Altschul</name>
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<biblStruct><analytic><author><name sortKey="Lowe, Tm" uniqKey="Lowe T">TM Lowe</name>
</author>
<author><name sortKey="Eddy, Sr" uniqKey="Eddy S">SR Eddy</name>
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</biblStruct>
</listBibl>
</div1>
</back>
</TEI>
<pmc article-type="brief-report"><pmc-dir>properties open_access</pmc-dir>
  <front><journal-meta><journal-id journal-id-type="nlm-ta">Genome Announc</journal-id>
<journal-id journal-id-type="iso-abbrev">Genome Announc</journal-id>
<journal-id journal-id-type="hwp">ga</journal-id>
<journal-id journal-id-type="pmc">ga</journal-id>
<journal-id journal-id-type="publisher-id">GA</journal-id>
<journal-title-group><journal-title>Genome Announcements</journal-title>
</journal-title-group>
<issn pub-type="epub">2169-8287</issn>
<publisher><publisher-name>American Society for Microbiology</publisher-name>
<publisher-loc>1752 N St., N.W., Washington, DC</publisher-loc>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">24285646</article-id>
<article-id pub-id-type="pmc">3869331</article-id>
<article-id pub-id-type="publisher-id">genomeA00975-13</article-id>
<article-id pub-id-type="doi">10.1128/genomeA.00975-13</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Prokaryotes</subject>
</subj-group>
</article-categories>
<title-group><article-title>Genome Sequence of <italic>Rickettsia gravesii</italic>
, Isolated from Western Australian Ticks</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Sentausa</surname>
<given-names>Erwin</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Abdad</surname>
<given-names>Mohammad Yazid</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>b</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Robert</surname>
<given-names>Catherine</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Stenos</surname>
<given-names>John</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>b</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Raoult</surname>
<given-names>Didier</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<contrib contrib-type="author" corresp="yes"><name><surname>Fournier</surname>
<given-names>Pierre-Edouard</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<aff id="aff1">Aix-Marseille Université, URMITE, UM63, CNRS 7278, IRD 198, Inserm U1095, Marseille, France<label>a</label>
</aff>
<aff id="aff2">Australian Rickettsial Reference Laboratory, Geelong, Victoria, Australia<label>b</label>
</aff>
</contrib-group>
<author-notes><corresp id="cor1">Address correspondence to Pierre-Edouard Fournier, <email>pierre-edouard.fournier@univ-amu.fr</email>
.</corresp>
</author-notes>
<pub-date pub-type="epub"><day>27</day>
<month>11</month>
<year>2013</year>
</pub-date>
<pub-date pub-type="collection"><season>Nov-Dec</season>
<year>2013</year>
</pub-date>
<volume>1</volume>
<issue>6</issue>
<elocation-id>e00975-13</elocation-id>
<history><date date-type="received"><day>21</day>
<month>10</month>
<year>2013</year>
</date>
<date date-type="accepted"><day>31</day>
<month>10</month>
<year>2013</year>
</date>
</history>
<permissions><copyright-statement>Copyright © 2013 Sentausa et al.</copyright-statement>
<copyright-year>2013</copyright-year>
<copyright-holder>Sentausa et al.</copyright-holder>
<license license-type="open-access" xlink:href="http://creativecommons.org/licenses/by/3.0/"><license-p>This is an open-access article distributed under the terms of the <ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/3.0/">Creative Commons Attribution 3.0 Unported license</ext-link>
.</license-p>
</license>
</permissions>
<self-uri xlink:title="pdf" xlink:type="simple" xlink:href="jga00613796001.pdf"></self-uri>
<abstract><p><italic>Rickettsia gravesii</italic>
 is a new <italic>Rickettsia</italic>
 species closely related to the human pathogen <italic>Rickettsia massiliae</italic>
. Here, we describe the genome sequence of <italic>R. gravesii</italic>
 strain BWI-1, isolated from <italic>Amblyomma triguttatum triguttatum</italic>
 ticks collected from humans on Barrow Island, Western Australia.</p>
</abstract>
<counts><page-count count="2"></page-count>
</counts>
<custom-meta-group><custom-meta><meta-name>cover-date</meta-name>
<meta-value>November/December 2013</meta-value>
</custom-meta>
<custom-meta><meta-name>access-type</meta-name>
<meta-value>free</meta-value>
</custom-meta>
</custom-meta-group>
</article-meta>
</front>
<body><sec><title>GENOME ANNOUNCEMENT</title>
<p>Rickettsiae are obligate intracellular alphaproteobacteria and are the etiological agents of several arthropod-borne diseases in humans. <italic>Rickettsia gravesii</italic>
 is a novel species isolated from <italic>Amblyomma triguttatum triguttatum</italic>
 ticks removed from humans on Barrow Island, Western Australia, after there was anecdotal evidence of a disease possibly of rickettsial origin in the region (<xref ref-type="bibr" rid="B1">1</xref>
). It was also found in other tick species, such as <italic>Amblyomma limbatum</italic>
 (<xref ref-type="bibr" rid="B2">2</xref>
); its distribution so far is recognized to coincide with that of <italic>A. triguttatum triguttatum</italic>
 (<xref ref-type="bibr" rid="B3">3</xref>
), and it was found to be highly prevalent in members of the latter tick species collected from feral pigs in the southern part of Western Australia (<xref ref-type="bibr" rid="B4">4</xref>
). Although its pathogenic potential is currently unknown, <italic>R. gravesii</italic>
 is closely related to the spotted-fever group species <italic>Rickettsia massiliae</italic>
 (<xref ref-type="bibr" rid="B1">1</xref>
), which is pathogenic to humans and prevalent in Europe and Africa (<xref ref-type="bibr" rid="B5">5</xref>
, <xref ref-type="bibr" rid="B6">6</xref>
). Here, we describe the genome sequence of <italic>R. gravesii</italic>
 strain BWI-1<sup>T</sup>
.</p>
<p><italic>R. gravesii</italic>
 (deposited in the Collection de Souches de l’Unite des Rickettsies [CSUR] under reference R172) was grown in XTC and L929 cells, and its genomic DNA was extracted using a phenol-chloroform protocol. Sequencing was performed using the MiSeq platform (Illumina, San Diego, CA) with a 2 × 250-bp paired-end run after library preparation with the Nextera XT sample preparation kit (Illumina). <italic>De novo</italic>
 genome assembly was done using the CLC Genomics Workbench 4.9 (CLC bio, Aarhus, Denmark). The resulting contigs were reordered in Mauve 2.3.1 (<xref ref-type="bibr" rid="B7">7</xref>
) using the genome sequence from <italic>R. massiliae</italic>
 strain MTU5 (GenBank accession no. CP000683) (<xref ref-type="bibr" rid="B8">8</xref>
) as a reference. Open reading frame (ORF) prediction and gene annotation were carried out using RAST 4.0 (<xref ref-type="bibr" rid="B9">9</xref>
). rRNAs, tRNAs, and other RNAs were identified using BLASTn (<xref ref-type="bibr" rid="B10">10</xref>
), tRNAscan-SE 1.21 (<xref ref-type="bibr" rid="B11">11</xref>
), and RNAmmer 1.2 (<xref ref-type="bibr" rid="B12">12</xref>
), respectively. The orthologous genes between <italic>R. gravesii</italic>
 and <italic>R. massiliae</italic>
 MTU5 were identified using OrthoMCL (<xref ref-type="bibr" rid="B13">13</xref>
), with a BLASTp <italic>E</italic>
 value cutoff of 1 × 10<sup>−5</sup>
 and the default Markov cluster algorithm (MCL) inflation parameter of 1.5.</p>
<p>The draft genome sequence of <italic>R. gravesii</italic>
 BWI-1<sup>T</sup>
 is made up of 28 chromosomal contigs exhibiting an average length and coverage of 47,415 bp and 185×, respectively, arranged in a single scaffold, for a chromosome size of 1,327,625 bp (G+C content, 32.2%). We also detected a 19,874-bp plasmid (pRgr) with a G+C content of 31.8% and 91% sequence identity (36% coverage; <italic>E</italic>
 value, 0.0) to <italic>Rickettsia monacensis</italic>
 strain IrR/Munich plasmid pRM (accession no. EF564599). The chromosome contains 1,675 protein-encoding genes and, like other <italic>Rickettsia</italic>
 species, 3 noncontiguous rRNAs (5S, 16S, and 23S rRNA), 33 tRNAs, and 3 other RNAs. In addition, the pRgr plasmid contains 24 protein-encoding genes, including a split <italic>sca12</italic>
 gene and a proline-betaine transporter gene, but no RNAs.</p>
<p>Compared to that of <italic>R. massiliae</italic>
 MTU5, the <italic>R. gravesii</italic>
 chromosome exhibits a high level of synteny with the exception of four inversions of 37,978 bp, 4,791 bp, 2,782 bp, and 1,339 bp. Moreover, several genes are lacking in the <italic>R. gravesii</italic>
 genome, including <italic>paaJ</italic>
 (acetyl-coenzyme A [CoA] acetyltransferase), <italic>def</italic>
3 (polypeptide deformylase), and genes for several transposases and inactivated derivatives.</p>
<sec id="h1"><title>Nucleotide sequence accession number.</title>
<p>This whole-genome shotgun project has been deposited at DDBJ/EMBL/GenBank under the accession no. <ext-link ext-link-type="uri" xlink:href="http://www.ncbi.nlm.nih.gov/nuccore?term=AWXL00000000">AWXL00000000</ext-link>
.</p>
</sec>
</sec>
</body>
<back><fn-group><fn fn-type="other"><p><bold>Citation</bold>
 Sentausa E, Abdad MY, Robert C, Stenos J, Raoult D, Fournier P-E. 2013. Genome sequence of <italic>Rickettsia gravesii</italic>
, isolated from Western Australian ticks. Genome Announc. 1(6):e00975-13. doi:10.1128/genomeA.00975-13.</p>
</fn>
</fn-group>
<ack><title>ACKNOWLEDGMENT</title>
<p>This research was funded by the Mediterranee-Infection Foundation.</p>
</ack>
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