Lack of conservation of bacterial type promoters in plastids of Streptophyta
Identifieur interne : 000E41 ( Pmc/Curation ); précédent : 000E40; suivant : 000E42Lack of conservation of bacterial type promoters in plastids of Streptophyta
Auteurs : Vassily A. Lyubetsky [Russie] ; Lev I. Rubanov [Russie] ; Alexandr V. Seliverstov [Russie]Source :
- Biology Direct [ 1745-6150 ] ; 2010.
Abstract
We demonstrate the scarcity of conserved bacterial-type promoters in plastids of Streptophyta and report widely conserved promoters only for genes
This article was reviewed by Dr. Arcady Mushegian, and by Dr. Alexander Bolshoy and Dr. Yuri Wolf (both nominated by Dr. Purificación López-García).
Url:
DOI: 10.1186/1745-6150-5-34
PubMed: 20459727
PubMed Central: 2881121
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Lack of conservation of bacterial type promoters in plastids of Streptophyta</title><author><name sortKey="Lyubetsky, Vassily A" sort="Lyubetsky, Vassily A" uniqKey="Lyubetsky V" first="Vassily A" last="Lyubetsky">Vassily A. Lyubetsky</name><affiliation wicri:level="1"><nlm:aff id="I1">Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994, Russia</nlm:aff><country xml:lang="fr">Russie</country><wicri:regionArea>Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994</wicri:regionArea></affiliation></author><author><name sortKey="Rubanov, Lev I" sort="Rubanov, Lev I" uniqKey="Rubanov L" first="Lev I" last="Rubanov">Lev I. Rubanov</name><affiliation wicri:level="1"><nlm:aff id="I1">Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994, Russia</nlm:aff><country xml:lang="fr">Russie</country><wicri:regionArea>Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994</wicri:regionArea></affiliation></author><author><name sortKey="Seliverstov, Alexandr V" sort="Seliverstov, Alexandr V" uniqKey="Seliverstov A" first="Alexandr V" last="Seliverstov">Alexandr V. Seliverstov</name><affiliation wicri:level="1"><nlm:aff id="I1">Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994, Russia</nlm:aff><country xml:lang="fr">Russie</country><wicri:regionArea>Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994</wicri:regionArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">20459727</idno><idno type="pmc">2881121</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2881121</idno><idno type="RBID">PMC:2881121</idno><idno type="doi">10.1186/1745-6150-5-34</idno><date when="2010">2010</date><idno type="wicri:Area/Pmc/Corpus">000E42</idno><idno type="wicri:Area/Pmc/Curation">000E41</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Lack of conservation of bacterial type promoters in plastids of Streptophyta</title><author><name sortKey="Lyubetsky, Vassily A" sort="Lyubetsky, Vassily A" uniqKey="Lyubetsky V" first="Vassily A" last="Lyubetsky">Vassily A. Lyubetsky</name><affiliation wicri:level="1"><nlm:aff id="I1">Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994, Russia</nlm:aff><country xml:lang="fr">Russie</country><wicri:regionArea>Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994</wicri:regionArea></affiliation></author><author><name sortKey="Rubanov, Lev I" sort="Rubanov, Lev I" uniqKey="Rubanov L" first="Lev I" last="Rubanov">Lev I. Rubanov</name><affiliation wicri:level="1"><nlm:aff id="I1">Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994, Russia</nlm:aff><country xml:lang="fr">Russie</country><wicri:regionArea>Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994</wicri:regionArea></affiliation></author><author><name sortKey="Seliverstov, Alexandr V" sort="Seliverstov, Alexandr V" uniqKey="Seliverstov A" first="Alexandr V" last="Seliverstov">Alexandr V. Seliverstov</name><affiliation wicri:level="1"><nlm:aff id="I1">Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994, Russia</nlm:aff><country xml:lang="fr">Russie</country><wicri:regionArea>Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994</wicri:regionArea></affiliation></author></analytic><series><title level="j">Biology Direct</title><idno type="eISSN">1745-6150</idno><imprint><date when="2010">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title></title><p>We demonstrate the scarcity of conserved bacterial-type promoters in plastids of Streptophyta and report widely conserved promoters only for genes <italic>psaA, psbA, psbB, psbE, rbcL</italic>. Among the reasonable explanations are: evolutionary changes of sigma subunit paralogs and phage-type RNA polymerases possibly entailing the loss of corresponding nuclear genes, <italic>de novo </italic>emergence of the promoters, their loss together with plastome genes; functional substitution of the promoter boxes by transcription activation factor binding sites.</p></sec><sec><title>Reviewers</title><p>This article was reviewed by Dr. Arcady Mushegian, and by Dr. Alexander Bolshoy and Dr. Yuri Wolf (both nominated by Dr. Purificación López-García).</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Singer, M" uniqKey="Singer M">M Singer</name></author><author><name sortKey="Berg, P" uniqKey="Berg P">P Berg</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Collado Vides, J" uniqKey="Collado Vides J">J Collado-Vides</name></author><author><name sortKey="Salgado, H" uniqKey="Salgado H">H 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Oelmüller</name></author><author><name sortKey="Pfannschmidt, T" uniqKey="Pfannschmidt T">T Pfannschmidt</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nagashima, A" uniqKey="Nagashima A">A Nagashima</name></author><author><name sortKey="Hanaoka, M" uniqKey="Hanaoka M">M Hanaoka</name></author><author><name sortKey="Motohashi, R" uniqKey="Motohashi R">R Motohashi</name></author><author><name sortKey="Seki, M" uniqKey="Seki M">M Seki</name></author><author><name sortKey="Shinozaki, K" uniqKey="Shinozaki K">K Shinozaki</name></author><author><name sortKey="Kanamaru, K" uniqKey="Kanamaru K">K Kanamaru</name></author><author><name sortKey="Takahashi, H" uniqKey="Takahashi H">H Takahashi</name></author><author><name sortKey="Tanaka, K" uniqKey="Tanaka K">K Tanaka</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rogers, Mb" uniqKey="Rogers M">MB Rogers</name></author><author><name sortKey="Gilson, Pr" uniqKey="Gilson 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E">EA Lysenko</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Swiatecka Hagenbruch, M" uniqKey="Swiatecka Hagenbruch M">M Swiatecka-Hagenbruch</name></author><author><name sortKey="Emanuel, C" uniqKey="Emanuel C">C Emanuel</name></author><author><name sortKey="Hedtke, B" uniqKey="Hedtke B">B Hedtke</name></author><author><name sortKey="Liere, K" uniqKey="Liere K">K Liere</name></author><author><name sortKey="Borner, T" uniqKey="Borner T">T Borner</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wickett, Nj" uniqKey="Wickett N">NJ Wickett</name></author><author><name sortKey="Zhang, Y" uniqKey="Zhang Y">Y Zhang</name></author><author><name sortKey="Hansen, Sk" uniqKey="Hansen S">SK Hansen</name></author><author><name sortKey="Roper, Jm" uniqKey="Roper J">JM Roper</name></author><author><name sortKey="Kuehl, Jv" uniqKey="Kuehl J">JV Kuehl</name></author><author><name sortKey="Plock, Sa" uniqKey="Plock S">SA Plock</name></author><author><name sortKey="Wolf, Pg" uniqKey="Wolf P">PG Wolf</name></author><author><name sortKey="Depamphilis, Cw" uniqKey="Depamphilis C">CW Depamphilis</name></author><author><name sortKey="Boore, Jl" uniqKey="Boore J">JL Boore</name></author><author><name sortKey="Goffinet, B" uniqKey="Goffinet B">B Goffinet</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Seliverstov, Av" uniqKey="Seliverstov A">AV Seliverstov</name></author><author><name sortKey="Lyubetsky, Va" uniqKey="Lyubetsky V">VA Lyubetsky</name></author></analytic></biblStruct></listBibl></div1></back></TEI><pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Biol Direct</journal-id><journal-title-group><journal-title>Biology Direct</journal-title></journal-title-group><issn pub-type="epub">1745-6150</issn><publisher><publisher-name>BioMed Central</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">20459727</article-id><article-id pub-id-type="pmc">2881121</article-id><article-id pub-id-type="publisher-id">1745-6150-5-34</article-id><article-id pub-id-type="doi">10.1186/1745-6150-5-34</article-id><article-categories><subj-group subj-group-type="heading"><subject>Discovery notes</subject></subj-group></article-categories><title-group><article-title>Lack of conservation of bacterial type promoters in plastids of Streptophyta</article-title></title-group><contrib-group><contrib contrib-type="author" corresp="yes" id="A1"><name><surname>Lyubetsky</surname><given-names>Vassily A</given-names></name><xref ref-type="aff" rid="I1">1</xref><email>lyubetsk@iitp.ru</email></contrib><contrib contrib-type="author" id="A2"><name><surname>Rubanov</surname><given-names>Lev I</given-names></name><xref ref-type="aff" rid="I1">1</xref><email>rubanov@iitp.ru</email></contrib><contrib contrib-type="author" id="A3"><name><surname>Seliverstov</surname><given-names>Alexandr V</given-names></name><xref ref-type="aff" rid="I1">1</xref><email>slvstv@iitp.ru</email></contrib></contrib-group><aff id="I1"><label>1</label>Institute for Information Transmission Problems of the Russian Academy of Sciences, 19, Bolshoy Karetny per., Moscow, 127994, Russia</aff><pub-date pub-type="collection"><year>2010</year></pub-date><pub-date pub-type="epub"><day>10</day><month>5</month><year>2010</year></pub-date><volume>5</volume><fpage>34</fpage><lpage>34</lpage><history><date date-type="received"><day>20</day><month>4</month><year>2010</year></date><date date-type="accepted"><day>10</day><month>5</month><year>2010</year></date></history><permissions><copyright-statement>Copyright ©2010 Lyubetsky et al; licensee BioMed Central Ltd.</copyright-statement><copyright-year>2010</copyright-year><copyright-holder>Lyubetsky et al; licensee BioMed Central Ltd.</copyright-holder><license license-type="open-access" xlink:href="http://creativecommons.org/licenses/by/2.0"><license-p>This is an Open Access article distributed under the terms of the Creative Commons Attribution License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/2.0">http://creativecommons.org/licenses/by/2.0</ext-link>), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p></license></permissions><self-uri xlink:href="http://www.biology-direct.com/content/5/1/34"></self-uri><abstract><sec><title></title><p>We demonstrate the scarcity of conserved bacterial-type promoters in plastids of Streptophyta and report widely conserved promoters only for genes <italic>psaA, psbA, psbB, psbE, rbcL</italic>. Among the reasonable explanations are: evolutionary changes of sigma subunit paralogs and phage-type RNA polymerases possibly entailing the loss of corresponding nuclear genes, <italic>de novo </italic>emergence of the promoters, their loss together with plastome genes; functional substitution of the promoter boxes by transcription activation factor binding sites.</p></sec><sec><title>Reviewers</title><p>This article was reviewed by Dr. Arcady Mushegian, and by Dr. Alexander Bolshoy and Dr. Yuri Wolf (both nominated by Dr. Purificación López-García).</p></sec></abstract></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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