IWoCS: analyzing ribosomal intergenic transcribed spacers configuration and taxonomic relationships.
Identifieur interne : 002D20 ( Main/Exploration ); précédent : 002D19; suivant : 002D21IWoCS: analyzing ribosomal intergenic transcribed spacers configuration and taxonomic relationships.
Auteurs : Giuseppe D'Auria [Espagne] ; Ravindra Pushker ; Francisco Rodriguez-ValeraSource :
- Bioinformatics (Oxford, England) [ 1367-4803 ] ; 2006.
Descripteurs français
- KwdFr :
- ARN bactérien (génétique), ARN ribosomique 16S (), ARN ribosomique 16S (génétique), ARN ribosomique 23S (), ARN ribosomique 23S (génétique), Algorithmes, Alignement de séquences (), Analyse de séquence d'ARN (), Bases de données génétiques, Espaceur de l'ADN ribosomique (génétique), Logiciel, Phylogénie, Similitude de séquences d'acides nucléiques, Spécificité d'espèce, Séquence conservée, Transcription génétique (génétique), Étiquettes de séquences exprimées.
- MESH :
- génétique : ARN bactérien, ARN ribosomique 16S, ARN ribosomique 23S, Espaceur de l'ADN ribosomique, Transcription génétique.
- ARN ribosomique 16S, ARN ribosomique 23S, Algorithmes, Alignement de séquences, Analyse de séquence d'ARN, Bases de données génétiques, Logiciel, Phylogénie, Similitude de séquences d'acides nucléiques, Spécificité d'espèce, Séquence conservée, Étiquettes de séquences exprimées.
English descriptors
- KwdEn :
- Algorithms, Conserved Sequence, DNA, Ribosomal Spacer (genetics), Databases, Genetic, Expressed Sequence Tags, Phylogeny, RNA, Bacterial (genetics), RNA, Ribosomal, 16S (classification), RNA, Ribosomal, 16S (genetics), RNA, Ribosomal, 23S (classification), RNA, Ribosomal, 23S (genetics), Sequence Alignment (methods), Sequence Analysis, RNA (methods), Sequence Homology, Nucleic Acid, Software, Species Specificity, Transcription, Genetic (genetics).
- MESH :
- chemical , classification : RNA, Ribosomal, 16S, RNA, Ribosomal, 23S.
- chemical , genetics : DNA, Ribosomal Spacer, RNA, Bacterial, RNA, Ribosomal, 16S, RNA, Ribosomal, 23S.
- genetics : Transcription, Genetic.
- methods : Sequence Alignment, Sequence Analysis, RNA.
- Algorithms, Conserved Sequence, Databases, Genetic, Expressed Sequence Tags, Phylogeny, Sequence Homology, Nucleic Acid, Software, Species Specificity.
Abstract
Lately the use of 16S-23S Intergenic Transcribed Spacer (ITS) sequences for bacterial typing purposes has increased. The presence of conserved regions like tRNA genes or boxes together with hypervariable regions allows performing intraspecific discrimination of very close bacterial strains. On the other hand this mosaic of variability makes the ITS a sequence difficult to analyze and compare.
DOI: 10.1093/bioinformatics/btk033
PubMed: 16403794
Affiliations:
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Le document en format XML
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Pushker</name></author><author><name sortKey="Rodriguez Valera, Francisco" sort="Rodriguez Valera, Francisco" uniqKey="Rodriguez Valera F" first="Francisco" last="Rodriguez-Valera">Francisco Rodriguez-Valera</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2006">2006</date><idno type="RBID">pubmed:16403794</idno><idno type="pmid">16403794</idno><idno type="doi">10.1093/bioinformatics/btk033</idno><idno type="wicri:Area/PubMed/Corpus">002288</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002288</idno><idno type="wicri:Area/PubMed/Curation">002288</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002288</idno><idno type="wicri:Area/PubMed/Checkpoint">002122</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002122</idno><idno type="wicri:Area/Ncbi/Merge">000393</idno><idno type="wicri:Area/Ncbi/Curation">000393</idno><idno 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03550 San Juan de Alicante</wicri:regionArea><placeName><region nuts="2" type="communauté">Communauté valencienne</region></placeName></affiliation></author><author><name sortKey="Pushker, Ravindra" sort="Pushker, Ravindra" uniqKey="Pushker R" first="Ravindra" last="Pushker">Ravindra Pushker</name></author><author><name sortKey="Rodriguez Valera, Francisco" sort="Rodriguez Valera, Francisco" uniqKey="Rodriguez Valera F" first="Francisco" last="Rodriguez-Valera">Francisco Rodriguez-Valera</name></author></analytic><series><title level="j">Bioinformatics (Oxford, England)</title><idno type="ISSN">1367-4803</idno><imprint><date when="2006" type="published">2006</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Algorithms</term><term>Conserved Sequence</term><term>DNA, Ribosomal Spacer (genetics)</term><term>Databases, Genetic</term><term>Expressed Sequence Tags</term><term>Phylogeny</term><term>RNA, Bacterial (genetics)</term><term>RNA, Ribosomal, 16S (classification)</term><term>RNA, Ribosomal, 16S (genetics)</term><term>RNA, Ribosomal, 23S (classification)</term><term>RNA, Ribosomal, 23S (genetics)</term><term>Sequence Alignment (methods)</term><term>Sequence Analysis, RNA (methods)</term><term>Sequence Homology, Nucleic Acid</term><term>Software</term><term>Species Specificity</term><term>Transcription, Genetic (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN bactérien (génétique)</term><term>ARN ribosomique 16S ()</term><term>ARN ribosomique 16S (génétique)</term><term>ARN ribosomique 23S ()</term><term>ARN ribosomique 23S (génétique)</term><term>Algorithmes</term><term>Alignement de séquences ()</term><term>Analyse de séquence d'ARN ()</term><term>Bases de données génétiques</term><term>Espaceur de l'ADN ribosomique (génétique)</term><term>Logiciel</term><term>Phylogénie</term><term>Similitude de séquences d'acides nucléiques</term><term>Spécificité d'espèce</term><term>Séquence conservée</term><term>Transcription génétique (génétique)</term><term>Étiquettes de séquences exprimées</term></keywords><keywords scheme="MESH" type="chemical" qualifier="classification" xml:lang="en"><term>RNA, Ribosomal, 16S</term><term>RNA, Ribosomal, 23S</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Ribosomal Spacer</term><term>RNA, Bacterial</term><term>RNA, Ribosomal, 16S</term><term>RNA, Ribosomal, 23S</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Transcription, Genetic</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN bactérien</term><term>ARN ribosomique 16S</term><term>ARN ribosomique 23S</term><term>Espaceur de l'ADN ribosomique</term><term>Transcription génétique</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Sequence Alignment</term><term>Sequence Analysis, RNA</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Algorithms</term><term>Conserved Sequence</term><term>Databases, Genetic</term><term>Expressed Sequence Tags</term><term>Phylogeny</term><term>Sequence Homology, Nucleic Acid</term><term>Software</term><term>Species Specificity</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>ARN ribosomique 16S</term><term>ARN ribosomique 23S</term><term>Algorithmes</term><term>Alignement de séquences</term><term>Analyse de séquence d'ARN</term><term>Bases de données génétiques</term><term>Logiciel</term><term>Phylogénie</term><term>Similitude de séquences d'acides nucléiques</term><term>Spécificité d'espèce</term><term>Séquence conservée</term><term>Étiquettes de séquences exprimées</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Lately the use of 16S-23S Intergenic Transcribed Spacer (ITS) sequences for bacterial typing purposes has increased. The presence of conserved regions like tRNA genes or boxes together with hypervariable regions allows performing intraspecific discrimination of very close bacterial strains. On the other hand this mosaic of variability makes the ITS a sequence difficult to analyze and compare.</div></front></TEI><affiliations><list><country><li>Espagne</li></country><region><li>Communauté valencienne</li></region></list><tree><noCountry><name sortKey="Pushker, Ravindra" sort="Pushker, Ravindra" uniqKey="Pushker R" first="Ravindra" last="Pushker">Ravindra Pushker</name><name sortKey="Rodriguez Valera, Francisco" sort="Rodriguez Valera, Francisco" uniqKey="Rodriguez Valera F" first="Francisco" last="Rodriguez-Valera">Francisco Rodriguez-Valera</name></noCountry><country name="Espagne"><region name="Communauté valencienne"><name sortKey="D Auria, Giuseppe" sort="D Auria, Giuseppe" uniqKey="D Auria G" first="Giuseppe" last="D'Auria">Giuseppe D'Auria</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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