Distinguishing species
Given two organisms, how can one distinguish whether they belong to the same species or not? This might be straightforward for two divergent organisms, but can be extremely difficult and laborious for closely related ones. A molecular marker giving a clear distinction would therefore be of immense b...
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| Published in | RNA (Cambridge) Vol. 13; no. 9; pp. 1469 - 1472 |
|---|---|
| Main Authors | , , , , |
| Format | Journal Article |
| Language | English |
| Published |
United States
Cold Spring Harbor Laboratory Press
01.09.2007
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| Subjects | |
| Online Access | Get full text |
| ISSN | 1355-8382 1469-9001 |
| DOI | 10.1261/rna.617107 |
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| Abstract | Given two organisms, how can one distinguish whether they belong to the same species or not? This might be straightforward for two divergent organisms, but can be extremely difficult and laborious for closely related ones. A molecular marker giving a clear distinction would therefore be of immense benefit. The internal transcribed spacer 2 (ITS2) has been widely used for low-level phylogenetic analyses. Case studies revealed that a compensatory base change (CBC) in the helix II or helix III ITS2 secondary structure between two organisms correlated with sexual incompatibility. We analyzed more than 1300 closely related species to test whether this correlation is generally applicable. In 93%, where a CBC was found between organisms classified within the same genus, they belong to different species. Thus, a CBC in an ITS2 sequence-structure alignment is a sufficient condition to distinguish even closely related species. |
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| AbstractList | Given two organisms, how can one distinguish whether they belong to the same species or not? This might be straightforward for two divergent organisms, but can be extremely difficult and laborious for closely related ones. A molecular marker giving a clear distinction would therefore be of immense benefit. The internal transcribed spacer 2 (ITS2) has been widely used for low-level phylogenetic analyses. Case studies revealed that a compensatory base change (CBC) in the helix II or helix III ITS2 secondary structure between two organisms correlated with sexual incompatibility. We analyzed more than 1300 closely related species to test whether this correlation is generally applicable. In 93%, where a CBC was found between organisms classified within the same genus, they belong to different species. Thus, a CBC in an ITS2 sequence-structure alignment is a sufficient condition to distinguish even closely related species. Given two organisms, how can one distinguish whether they belong to the same species or not? This might be straightforward for two divergent organisms, but can be extremely difficult and laborious for closely related ones. A molecular marker giving a clear distinction would therefore be of immense benefit. The internal transcribed spacer 2 (ITS2) has been widely used for low-level phylogenetic analyses. Case studies revealed that a compensatory base change (CBC) in the helix II or helix III ITS2 secondary structure between two organisms correlated with sexual incompatibility. We analyzed more than 1300 closely related species to test whether this correlation is generally applicable. In 93%, where a CBC was found between organisms classified within the same genus, they belong to different species. Thus, a CBC in an ITS2 sequence-structure alignment is a sufficient condition to distinguish even closely related species.Given two organisms, how can one distinguish whether they belong to the same species or not? This might be straightforward for two divergent organisms, but can be extremely difficult and laborious for closely related ones. A molecular marker giving a clear distinction would therefore be of immense benefit. The internal transcribed spacer 2 (ITS2) has been widely used for low-level phylogenetic analyses. Case studies revealed that a compensatory base change (CBC) in the helix II or helix III ITS2 secondary structure between two organisms correlated with sexual incompatibility. We analyzed more than 1300 closely related species to test whether this correlation is generally applicable. In 93%, where a CBC was found between organisms classified within the same genus, they belong to different species. Thus, a CBC in an ITS2 sequence-structure alignment is a sufficient condition to distinguish even closely related species. |
| Author | Müller, Tobias Dandekar, Thomas Schultz, Jörg Wolf, Matthias Philippi, Nicole |
| AuthorAffiliation | Department of Bioinformatics, Biocenter, University of Würzburg, Am Hubland, D-97074 Würzburg, Germany |
| AuthorAffiliation_xml | – name: Department of Bioinformatics, Biocenter, University of Würzburg, Am Hubland, D-97074 Würzburg, Germany |
| Author_xml | – sequence: 1 givenname: Tobias surname: Müller fullname: Müller, Tobias – sequence: 2 givenname: Nicole surname: Philippi fullname: Philippi, Nicole – sequence: 3 givenname: Thomas surname: Dandekar fullname: Dandekar, Thomas – sequence: 4 givenname: Jörg surname: Schultz fullname: Schultz, Jörg – sequence: 5 givenname: Matthias surname: Wolf fullname: Wolf, Matthias |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/17652131$$D View this record in MEDLINE/PubMed |
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| Cites_doi | 10.1007/s00239-001-0006-0 10.1261/rna.7204505 10.1261/rna.2144205 10.1186/1471-2105-7-498 10.1007/978-0-387-21706-2 10.1016/S0168-9525(03)00118-5 10.1093/nar/gkl129 10.1007/978-3-662-03368-5 10.1093/nar/gkm233 10.2307/1390807 |
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| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 ObjectType-Article-2 ObjectType-Feature-1 These authors contributed equally to this work. Reprint requests to: Tobias Müller, Department of Bioinformatics, Biocenter, University of Würzburg, Am Hubland, D-97074 Würzburg, Germany; e-mail: tobias.mueller@biozentrum.uni-wuerzburg.de; joerg.schultz@biozentrum.uni-wuerzburg.de; matthias.wolf@biozentrum.uni-wuerzburg.de; fax: 49-931-8884552. |
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| References | 2021112105462874000_13.9.1469.8 2021112105462874000_13.9.1469.11 2021112105462874000_13.9.1469.9 Wolf (2021112105462874000_13.9.1469.12) 2005; 5 2021112105462874000_13.9.1469.6 2021112105462874000_13.9.1469.7 2021112105462874000_13.9.1469.10 2021112105462874000_13.9.1469.4 2021112105462874000_13.9.1469.5 2021112105462874000_13.9.1469.2 2021112105462874000_13.9.1469.3 2021112105462874000_13.9.1469.1 15769870 - RNA. 2005 Apr;11(4):361-4 16244129 - RNA. 2005 Nov;11(11):1616-23 15996120 - In Silico Biol. 2005;5(3):291-4 17459886 - Nucleic Acids Res. 2007;35(10):3322-9 16845103 - Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W704-7 17101042 - BMC Bioinformatics. 2006;7:498 11821917 - J Mol Evol. 2002 Feb;54(2):246-57 12850441 - Trends Genet. 2003 Jul;19(7):370-5 |
| References_xml | – ident: 2021112105462874000_13.9.1469.3 doi: 10.1007/s00239-001-0006-0 – ident: 2021112105462874000_13.9.1469.7 doi: 10.1261/rna.7204505 – ident: 2021112105462874000_13.9.1469.11 doi: 10.1261/rna.2144205 – ident: 2021112105462874000_13.9.1469.9 doi: 10.1186/1471-2105-7-498 – ident: 2021112105462874000_13.9.1469.10 doi: 10.1007/978-0-387-21706-2 – ident: 2021112105462874000_13.9.1469.1 doi: 10.1016/S0168-9525(03)00118-5 – ident: 2021112105462874000_13.9.1469.6 – ident: 2021112105462874000_13.9.1469.8 doi: 10.1093/nar/gkl129 – ident: 2021112105462874000_13.9.1469.5 doi: 10.1007/978-3-662-03368-5 – ident: 2021112105462874000_13.9.1469.2 doi: 10.1093/nar/gkm233 – volume: 5 start-page: 291 year: 2005 ident: 2021112105462874000_13.9.1469.12 article-title: CBCAnalyzer: Inferring phylogenies based on compensatory base changes in RNA secondary structures publication-title: In Silico Biol. – ident: 2021112105462874000_13.9.1469.4 doi: 10.2307/1390807 – reference: 17101042 - BMC Bioinformatics. 2006;7:498 – reference: 17459886 - Nucleic Acids Res. 2007;35(10):3322-9 – reference: 11821917 - J Mol Evol. 2002 Feb;54(2):246-57 – reference: 16244129 - RNA. 2005 Nov;11(11):1616-23 – reference: 15769870 - RNA. 2005 Apr;11(4):361-4 – reference: 16845103 - Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W704-7 – reference: 15996120 - In Silico Biol. 2005;5(3):291-4 – reference: 12850441 - Trends Genet. 2003 Jul;19(7):370-5 |
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| Snippet | Given two organisms, how can one distinguish whether they belong to the same species or not? This might be straightforward for two divergent organisms, but can... |
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| SubjectTerms | Animals Base Sequence - genetics Classification DNA, Intergenic - genetics Fungi - genetics Phylogeny Plants - genetics Point Mutation Sequence Alignment Species Specificity |
| Title | Distinguishing species |
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