Retroviral Oligonucleotide Distributions Correlate with Biased Nucleotide Compositions of Retrovirus Sequences, Suggesting a Duplicative Stepwise Molecular Evolution
Identifieur interne : 001504 ( Istex/Checkpoint ); précédent : 001503; suivant : 001505Retroviral Oligonucleotide Distributions Correlate with Biased Nucleotide Compositions of Retrovirus Sequences, Suggesting a Duplicative Stepwise Molecular Evolution
Auteurs : Ivan Laprevotte ; Sophie Brouillet ; Christophe Terzian ; Alain HénautSource :
- Journal of Molecular Evolution [ 0022-2844 ] ; 1997-02-01.
English descriptors
Abstract
Abstract.: A computer-assisted analysis was made of 24 complete nucleotide sequences selected from the vertebrate retroviruses to represent the ten viral groups. The conclusions of this analysis extend and strengthen the previously made hypothesis on the Moloney murine leukemia virus: The evolution of the nucleotide sequence appears to have occurred mainly through at least three overlapping levels of duplication: (1) The distributions of overrepresented (3–6)-mers are consistent with the universal rule of a trend toward TG/CT excess and with the persistence of a certain degree of symmetry between the two strands of DNA. This suggests one or several original tandemly repeated sequences and some inverted duplications. (2) The existence of two general core consensuses at the level of these (3–6)-mers supports the hypothesis of a common evolutionary origin of vertebrate retroviruses. Consensuses more specific to certain sequences are compatible with phylogenetic trees established independently. The consensuses could correspond to intermediary evolutionary stages. (3) Most of the (3–6)-mers with a significantly higher than average frequency appear to be internally repeated (with monomeric or oligomeric internal iterations) and seem to be at least partly the cause of the bias observed by other researchers at the level of retroviral nucleotide composition. They suggest a third evolutionary stage by slippage-like stepwise local duplications.
Url:
DOI: 10.1007/PL00006138
Affiliations:
Links toward previous steps (curation, corpus...)
Links to Exploration step
ISTEX:2D7705DC5D4A350403DFE1AE60DCA5E3B3AB6309Le document en format XML
<record><TEI wicri:istexFullTextTei="biblStruct"><teiHeader><fileDesc><titleStmt><title xml:lang="en">Retroviral Oligonucleotide Distributions Correlate with Biased Nucleotide Compositions of Retrovirus Sequences, Suggesting a Duplicative Stepwise Molecular Evolution</title><author><name sortKey="Laprevotte, Ivan" sort="Laprevotte, Ivan" uniqKey="Laprevotte I" first="Ivan" last="Laprevotte">Ivan Laprevotte</name></author><author><name sortKey="Brouillet, Sophie" sort="Brouillet, Sophie" uniqKey="Brouillet S" first="Sophie" last="Brouillet">Sophie Brouillet</name></author><author><name sortKey="Terzian, Christophe" sort="Terzian, Christophe" uniqKey="Terzian C" first="Christophe" last="Terzian">Christophe Terzian</name></author><author><name sortKey="Henaut, Alain" sort="Henaut, Alain" uniqKey="Henaut A" first="Alain" last="Hénaut">Alain Hénaut</name></author></titleStmt><publicationStmt><idno type="wicri:source">ISTEX</idno><idno type="RBID">ISTEX:2D7705DC5D4A350403DFE1AE60DCA5E3B3AB6309</idno><date when="1997" year="1997">1997</date><idno type="doi">10.1007/PL00006138</idno><idno type="url">https://api.istex.fr/ark:/67375/VQC-V2FXFF7R-W/fulltext.pdf</idno><idno type="wicri:Area/Istex/Corpus">000020</idno><idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Corpus" wicri:corpus="ISTEX">000020</idno><idno type="wicri:Area/Istex/Curation">000020</idno><idno type="wicri:Area/Istex/Checkpoint">001504</idno><idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Checkpoint">001504</idno></publicationStmt><sourceDesc><biblStruct><analytic><title level="a" type="main" xml:lang="en">Retroviral Oligonucleotide Distributions Correlate with Biased Nucleotide Compositions of Retrovirus Sequences, Suggesting a Duplicative Stepwise Molecular Evolution</title><author><name sortKey="Laprevotte, Ivan" sort="Laprevotte, Ivan" uniqKey="Laprevotte I" first="Ivan" last="Laprevotte">Ivan Laprevotte</name><affiliation><wicri:noCountry code="subField">FR</wicri:noCountry></affiliation></author><author><name sortKey="Brouillet, Sophie" sort="Brouillet, Sophie" uniqKey="Brouillet S" first="Sophie" last="Brouillet">Sophie Brouillet</name><affiliation><wicri:noCountry code="subField">FR</wicri:noCountry></affiliation></author><author><name sortKey="Terzian, Christophe" sort="Terzian, Christophe" uniqKey="Terzian C" first="Christophe" last="Terzian">Christophe Terzian</name><affiliation><wicri:noCountry code="subField">FR</wicri:noCountry></affiliation></author><author><name sortKey="Henaut, Alain" sort="Henaut, Alain" uniqKey="Henaut A" first="Alain" last="Hénaut">Alain Hénaut</name><affiliation><wicri:noCountry code="subField">FR</wicri:noCountry></affiliation></author></analytic><monogr></monogr><series><title level="j">Journal of Molecular Evolution</title><title level="j" type="abbrev">J Mol Evol</title><idno type="ISSN">0022-2844
</idno><idno type="eISSN">1432-1432</idno><imprint><publisher>Springer-Verlag</publisher><pubPlace>Berlin/Heidelberg</pubPlace><date type="published" when="1997-02-01">1997-02-01</date><biblScope unit="volume">44
</biblScope><biblScope unit="issue">2
</biblScope><biblScope unit="page" from="214
">214
</biblScope><biblScope unit="page" to="225
">225
</biblScope></imprint><idno type="ISSN">0022-2844
</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0022-2844
</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Key words: Computer-assisted analysis — Retrovirus nucleotide sequence — Stepwise duplicative molecular evolution — Core consensus — TG/CT excess — Symmetry — Tandem repeat — Cryptic simplicity — Slippage — Nucleotide composition</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Abstract.: A computer-assisted analysis was made of 24 complete nucleotide sequences selected from the vertebrate retroviruses to represent the ten viral groups. The conclusions of this analysis extend and strengthen the previously made hypothesis on the Moloney murine leukemia virus: The evolution of the nucleotide sequence appears to have occurred mainly through at least three overlapping levels of duplication: (1) The distributions of overrepresented (3–6)-mers are consistent with the universal rule of a trend toward TG/CT excess and with the persistence of a certain degree of symmetry between the two strands of DNA. This suggests one or several original tandemly repeated sequences and some inverted duplications. (2) The existence of two general core consensuses at the level of these (3–6)-mers supports the hypothesis of a common evolutionary origin of vertebrate retroviruses. Consensuses more specific to certain sequences are compatible with phylogenetic trees established independently. The consensuses could correspond to intermediary evolutionary stages. (3) Most of the (3–6)-mers with a significantly higher than average frequency appear to be internally repeated (with monomeric or oligomeric internal iterations) and seem to be at least partly the cause of the bias observed by other researchers at the level of retroviral nucleotide composition. They suggest a third evolutionary stage by slippage-like stepwise local duplications.</div></front></TEI><affiliations><list></list><tree><noCountry><name sortKey="Brouillet, Sophie" sort="Brouillet, Sophie" uniqKey="Brouillet S" first="Sophie" last="Brouillet">Sophie Brouillet</name><name sortKey="Henaut, Alain" sort="Henaut, Alain" uniqKey="Henaut A" first="Alain" last="Hénaut">Alain Hénaut</name><name sortKey="Laprevotte, Ivan" sort="Laprevotte, Ivan" uniqKey="Laprevotte I" first="Ivan" last="Laprevotte">Ivan Laprevotte</name><name sortKey="Terzian, Christophe" sort="Terzian, Christophe" uniqKey="Terzian C" first="Christophe" last="Terzian">Christophe Terzian</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/Istex/Checkpoint
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001504 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Istex/Checkpoint/biblio.hfd -nk 001504 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= MersV1
|flux= Istex
|étape= Checkpoint
|type= RBID
|clé= ISTEX:2D7705DC5D4A350403DFE1AE60DCA5E3B3AB6309
|texte= Retroviral Oligonucleotide Distributions Correlate with Biased Nucleotide Compositions of Retrovirus Sequences, Suggesting a Duplicative Stepwise Molecular Evolution
}}
| This area was generated with Dilib version V0.6.33. |  |