Complete genome of Staphylococcus aureus Tager 104 provides evidence of its relation to modern systemic hospital-acquired strains
Identifieur interne : 000042 ( Main/Exploration ); précédent : 000041; suivant : 000043Complete genome of Staphylococcus aureus Tager 104 provides evidence of its relation to modern systemic hospital-acquired strains
Auteurs : Richard W. Davis [États-Unis] ; Andrew D. Brannen [États-Unis] ; Mohammad J. Hossain [États-Unis] ; Scott Monsma [États-Unis] ; Paul E. Bock [États-Unis] ; Matthias Nahrendorf [États-Unis] ; David Mead [États-Unis] ; Michael Lodes [États-Unis] ; Mark R. Liles [États-Unis] ; Peter Panizzi [États-Unis]Source :
- BMC Genomics [ 1471-2164 ] ; 2016.
Abstract
We show here that
Tager 104 represents an early-branching ancestor of certain hospital-acquired strains. Combined with its earlier isolation date and limited content of MGE, Tager 104 can serve as a viable reference for future comparative genome studies.
The online version of this article (doi:10.1186/s12864-016-2433-8) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12864-016-2433-8
PubMed: 26940863
PubMed Central: 4778325
Affiliations:
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Brannen</name><affiliation wicri:level="2"><nlm:aff id="Aff1">Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn</wicri:cityArea></affiliation></author><author><name sortKey="Hossain, Mohammad J" sort="Hossain, Mohammad J" uniqKey="Hossain M" first="Mohammad J." last="Hossain">Mohammad J. Hossain</name><affiliation wicri:level="2"><nlm:aff id="Aff2">Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn</wicri:cityArea></affiliation></author><author><name sortKey="Monsma, Scott" sort="Monsma, Scott" uniqKey="Monsma S" first="Scott" last="Monsma">Scott Monsma</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Lucigen Corporation, 2905 Parmenter St, Middleton, WI 53562 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Wisconsin</region></placeName><wicri:cityArea>Lucigen Corporation, 2905 Parmenter St, Middleton</wicri:cityArea></affiliation></author><author><name sortKey="Bock, Paul E" sort="Bock, Paul E" uniqKey="Bock P" first="Paul E." last="Bock">Paul E. Bock</name><affiliation wicri:level="2"><nlm:aff id="Aff4">Department of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center, Nashville, TN 37232 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Tennessee</region></placeName><wicri:cityArea>Department of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center, Nashville</wicri:cityArea></affiliation></author><author><name sortKey="Nahrendorf, Matthias" sort="Nahrendorf, Matthias" uniqKey="Nahrendorf M" first="Matthias" last="Nahrendorf">Matthias Nahrendorf</name><affiliation wicri:level="2"><nlm:aff id="Aff5">Center for Systems Biology, Massachusetts General Hospital and Harvard Medical School, Simches Research Building, 185 Cambridge St., Boston, MA 02114 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Massachusetts</region></placeName><wicri:cityArea>Center for Systems Biology, Massachusetts General Hospital and Harvard Medical School, Simches Research Building, 185 Cambridge St., Boston</wicri:cityArea></affiliation></author><author><name sortKey="Mead, David" sort="Mead, David" uniqKey="Mead D" first="David" last="Mead">David Mead</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Lucigen Corporation, 2905 Parmenter St, Middleton, WI 53562 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Wisconsin</region></placeName><wicri:cityArea>Lucigen Corporation, 2905 Parmenter St, Middleton</wicri:cityArea></affiliation></author><author><name sortKey="Lodes, Michael" sort="Lodes, Michael" uniqKey="Lodes M" first="Michael" last="Lodes">Michael Lodes</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Lucigen Corporation, 2905 Parmenter St, Middleton, WI 53562 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Wisconsin</region></placeName><wicri:cityArea>Lucigen Corporation, 2905 Parmenter St, Middleton</wicri:cityArea></affiliation></author><author><name sortKey="Liles, Mark R" sort="Liles, Mark R" uniqKey="Liles M" first="Mark R." last="Liles">Mark R. Liles</name><affiliation wicri:level="2"><nlm:aff id="Aff2">Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn</wicri:cityArea></affiliation></author><author><name sortKey="Panizzi, Peter" sort="Panizzi, Peter" uniqKey="Panizzi P" first="Peter" last="Panizzi">Peter Panizzi</name><affiliation wicri:level="2"><nlm:aff id="Aff1">Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn</wicri:cityArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26940863</idno><idno type="pmc">4778325</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4778325</idno><idno type="RBID">PMC:4778325</idno><idno type="doi">10.1186/s12864-016-2433-8</idno><date when="2016">2016</date><idno type="wicri:Area/Pmc/Corpus">000173</idno><idno type="wicri:Area/Pmc/Curation">000173</idno><idno type="wicri:Area/Pmc/Checkpoint">000040</idno><idno type="wicri:Area/Ncbi/Merge">000714</idno><idno type="wicri:Area/Ncbi/Curation">000714</idno><idno type="wicri:Area/Ncbi/Checkpoint">000714</idno><idno type="wicri:Area/Main/Merge">000042</idno><idno type="wicri:Area/Main/Curation">000042</idno><idno type="wicri:Area/Main/Exploration">000042</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Complete genome of <italic>Staphylococcus aureus</italic> Tager 104 provides evidence of its relation to modern systemic hospital-acquired strains</title><author><name sortKey="Davis, Richard W" sort="Davis, Richard W" uniqKey="Davis R" first="Richard W." last="Davis">Richard W. Davis</name><affiliation wicri:level="2"><nlm:aff id="Aff1">Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn</wicri:cityArea></affiliation></author><author><name sortKey="Brannen, Andrew D" sort="Brannen, Andrew D" uniqKey="Brannen A" first="Andrew D." last="Brannen">Andrew D. Brannen</name><affiliation wicri:level="2"><nlm:aff id="Aff1">Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn</wicri:cityArea></affiliation></author><author><name sortKey="Hossain, Mohammad J" sort="Hossain, Mohammad J" uniqKey="Hossain M" first="Mohammad J." last="Hossain">Mohammad J. Hossain</name><affiliation wicri:level="2"><nlm:aff id="Aff2">Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn</wicri:cityArea></affiliation></author><author><name sortKey="Monsma, Scott" sort="Monsma, Scott" uniqKey="Monsma S" first="Scott" last="Monsma">Scott Monsma</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Lucigen Corporation, 2905 Parmenter St, Middleton, WI 53562 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Wisconsin</region></placeName><wicri:cityArea>Lucigen Corporation, 2905 Parmenter St, Middleton</wicri:cityArea></affiliation></author><author><name sortKey="Bock, Paul E" sort="Bock, Paul E" uniqKey="Bock P" first="Paul E." last="Bock">Paul E. Bock</name><affiliation wicri:level="2"><nlm:aff id="Aff4">Department of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center, Nashville, TN 37232 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Tennessee</region></placeName><wicri:cityArea>Department of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center, Nashville</wicri:cityArea></affiliation></author><author><name sortKey="Nahrendorf, Matthias" sort="Nahrendorf, Matthias" uniqKey="Nahrendorf M" first="Matthias" last="Nahrendorf">Matthias Nahrendorf</name><affiliation wicri:level="2"><nlm:aff id="Aff5">Center for Systems Biology, Massachusetts General Hospital and Harvard Medical School, Simches Research Building, 185 Cambridge St., Boston, MA 02114 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Massachusetts</region></placeName><wicri:cityArea>Center for Systems Biology, Massachusetts General Hospital and Harvard Medical School, Simches Research Building, 185 Cambridge St., Boston</wicri:cityArea></affiliation></author><author><name sortKey="Mead, David" sort="Mead, David" uniqKey="Mead D" first="David" last="Mead">David Mead</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Lucigen Corporation, 2905 Parmenter St, Middleton, WI 53562 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Wisconsin</region></placeName><wicri:cityArea>Lucigen Corporation, 2905 Parmenter St, Middleton</wicri:cityArea></affiliation></author><author><name sortKey="Lodes, Michael" sort="Lodes, Michael" uniqKey="Lodes M" first="Michael" last="Lodes">Michael Lodes</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Lucigen Corporation, 2905 Parmenter St, Middleton, WI 53562 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Wisconsin</region></placeName><wicri:cityArea>Lucigen Corporation, 2905 Parmenter St, Middleton</wicri:cityArea></affiliation></author><author><name sortKey="Liles, Mark R" sort="Liles, Mark R" uniqKey="Liles M" first="Mark R." last="Liles">Mark R. Liles</name><affiliation wicri:level="2"><nlm:aff id="Aff2">Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn</wicri:cityArea></affiliation></author><author><name sortKey="Panizzi, Peter" sort="Panizzi, Peter" uniqKey="Panizzi P" first="Peter" last="Panizzi">Peter Panizzi</name><affiliation wicri:level="2"><nlm:aff id="Aff1">Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL 36849 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Alabama</region></placeName><wicri:cityArea>Department of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn</wicri:cityArea></affiliation></author></analytic><series><title level="j">BMC Genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p><italic>Staphylococcus aureus</italic> (<italic>S. aureus</italic>) infections range in severity due to expression of certain virulence factors encoded on mobile genetic elements (MGE). As such, characterization of these MGE, as well as single nucleotide polymorphisms, is of high clinical and microbiological importance. To understand the evolution of these dangerous pathogens, it is paramount to define reference strains that may predate MGE acquisition. One such candidate is <italic>S. aureus</italic> Tager 104, a previously uncharacterized strain isolated from a patient with impetigo in 1947.</p></sec><sec><title>Results</title><p>We show here that <italic>S. aureus</italic> Tager 104 can survive in the bloodstream and infect naïve organs. We also demonstrate a procedure to construct and validate the assembly of <italic>S. aureus</italic> genomes, using Tager 104 as a proof-of-concept. In so doing, we bridged confounding gap regions that limited our initial attempts to close this 2.82 Mb genome, through integration of data from Illumina Nextera paired-end, PacBio RS, and Lucigen NxSeq mate-pair libraries. Furthermore, we provide independent confirmation of our segmental arrangement of the Tager 104 genome by the sole use of Lucigen NxSeq libraries filled by paired-end MiSeq reads and alignment with SPAdes software. Genomic analysis of Tager 104 revealed limited MGE, and a νSaβ island configuration that is reminiscent of other hospital acquired <italic>S. aureus</italic> genomes.</p></sec><sec><title>Conclusions</title><p>Tager 104 represents an early-branching ancestor of certain hospital-acquired strains. Combined with its earlier isolation date and limited content of MGE, Tager 104 can serve as a viable reference for future comparative genome studies.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12864-016-2433-8) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Fowler, Vg" uniqKey="Fowler V">VG Fowler</name></author><author><name sortKey="Miro, Jm" uniqKey="Miro J">JM Miro</name></author><author><name sortKey="Hoen, B" uniqKey="Hoen B">B Hoen</name></author><author><name sortKey="Cabell, Ch" uniqKey="Cabell C">CH Cabell</name></author><author><name sortKey="Abrutyn, E" uniqKey="Abrutyn E">E Abrutyn</name></author><author><name sortKey="Rubinstein, E" uniqKey="Rubinstein E">E Rubinstein</name></author><author><name sortKey="Corey, Gr" uniqKey="Corey G">GR 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Mot</name></author><author><name sortKey="Hermans, K" uniqKey="Hermans K">K Hermans</name></author><author><name sortKey="Baert, K" uniqKey="Baert K">K Baert</name></author><author><name sortKey="Peacock, Sj" uniqKey="Peacock S">SJ Peacock</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Winstel, V" uniqKey="Winstel V">V Winstel</name></author><author><name sortKey="Liang, C" uniqKey="Liang C">C Liang</name></author><author><name sortKey="Sanchez Carballo, P" uniqKey="Sanchez Carballo P">P Sanchez-Carballo</name></author><author><name sortKey="Steglich, M" uniqKey="Steglich M">M Steglich</name></author><author><name sortKey="Munar, M" uniqKey="Munar M">M Munar</name></author><author><name sortKey="Broker, Bm" uniqKey="Broker B">BM Broker</name></author><author><name sortKey="Penades, Jr" uniqKey="Penades J">JR Penades</name></author><author><name sortKey="Nubel, U" uniqKey="Nubel U">U Nubel</name></author><author><name sortKey="Holst, O" uniqKey="Holst O">O Holst</name></author><author><name sortKey="Dandekar, T" uniqKey="Dandekar T">T Dandekar</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Alabama</li><li>Massachusetts</li><li>Tennessee</li><li>Wisconsin</li></region></list><tree><country name="États-Unis"><region name="Alabama"><name sortKey="Davis, Richard W" sort="Davis, Richard W" uniqKey="Davis R" first="Richard W." last="Davis">Richard W. Davis</name></region><name sortKey="Bock, Paul E" sort="Bock, Paul E" uniqKey="Bock P" first="Paul E." last="Bock">Paul E. Bock</name><name sortKey="Brannen, Andrew D" sort="Brannen, Andrew D" uniqKey="Brannen A" first="Andrew D." last="Brannen">Andrew D. Brannen</name><name sortKey="Hossain, Mohammad J" sort="Hossain, Mohammad J" uniqKey="Hossain M" first="Mohammad J." last="Hossain">Mohammad J. Hossain</name><name sortKey="Liles, Mark R" sort="Liles, Mark R" uniqKey="Liles M" first="Mark R." last="Liles">Mark R. Liles</name><name sortKey="Lodes, Michael" sort="Lodes, Michael" uniqKey="Lodes M" first="Michael" last="Lodes">Michael Lodes</name><name sortKey="Mead, David" sort="Mead, David" uniqKey="Mead D" first="David" last="Mead">David Mead</name><name sortKey="Monsma, Scott" sort="Monsma, Scott" uniqKey="Monsma S" first="Scott" last="Monsma">Scott Monsma</name><name sortKey="Nahrendorf, Matthias" sort="Nahrendorf, Matthias" uniqKey="Nahrendorf M" first="Matthias" last="Nahrendorf">Matthias Nahrendorf</name><name sortKey="Panizzi, Peter" sort="Panizzi, Peter" uniqKey="Panizzi P" first="Peter" last="Panizzi">Peter Panizzi</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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