@ARTICLE{TreeBASE2Ref2104,
author = {Gitte Petersen and Ole Seberg},
title = {Stowaway MITEs in Hordeum (Poaceae): Evolutionary History, Ancestral Elements, and Classification.},
year = {2008},
keywords = {},
doi = {},
url = {},
pmid = {},
journal = {Cladistics},
volume = {},
number = {},
pages = {},
abstract = {Given the lack of direct observational data relating to transposition of Stowaway miniature inverted repeat transposable elements phylogenetic methods may provide a means of generating data that adds to our knowledge about these elements. In a phylogenetic framework the evolutionary history of homologous elements may be traced, and the nucleotide sequence of elements at or close to the time of insertion can be reconstructed. Based on a phylogeny of the diploid species of the genus Hordeum we explore evolutionary aspects of four non-homologous groups of Stowaway elements inserted into three nuclear genes: nucellin, xylose isomerase, and barley leucine zipper 1. The data illustrate how elements from a high degree of sequence similarity between terminal inverted repeat regions gradually degrade, and confirm previous notions about preferential insertion at particular TA target sites. It is shown how creation of consensus sequences as estimates of ancestral elements may be positively misleading. The Stowaway family of transposable elements is often further divided into subfamilies based on sequence similarity between element. Sequence similarity data from the elements discovered in the xylose isomerase gene and other element found through BLAST searches in GenBank, reveal inconsistency of the rules used for classification. In order to reflect natural groups a classification of transposable elements must be based on phylogenetic evidence rather than raw similarity.}
}
Citation for Study 2167
Citation title:
"Stowaway MITEs in Hordeum (Poaceae): Evolutionary History, Ancestral Elements, and Classification.".
This study was previously identified under the legacy study ID S2173
(Status: Published).
Citation
Petersen G., & Seberg O. 2008. Stowaway MITEs in Hordeum (Poaceae): Evolutionary History, Ancestral Elements, and Classification. Cladistics, null.
Authors
-
Petersen G.
4535322194
-
Seberg O.
+45 3532 2195
Abstract
Given the lack of direct observational data relating to transposition of Stowaway miniature inverted repeat transposable elements phylogenetic methods may provide a means of generating data that adds to our knowledge about these elements. In a phylogenetic framework the evolutionary history of homologous elements may be traced, and the nucleotide sequence of elements at or close to the time of insertion can be reconstructed. Based on a phylogeny of the diploid species of the genus Hordeum we explore evolutionary aspects of four non-homologous groups of Stowaway elements inserted into three nuclear genes: nucellin, xylose isomerase, and barley leucine zipper 1. The data illustrate how elements from a high degree of sequence similarity between terminal inverted repeat regions gradually degrade, and confirm previous notions about preferential insertion at particular TA target sites. It is shown how creation of consensus sequences as estimates of ancestral elements may be positively misleading. The Stowaway family of transposable elements is often further divided into subfamilies based on sequence similarity between element. Sequence similarity data from the elements discovered in the xylose isomerase gene and other element found through BLAST searches in GenBank, reveal inconsistency of the rules used for classification. In order to reflect natural groups a classification of transposable elements must be based on phylogenetic evidence rather than raw similarity.
About this resource
- Canonical resource URI:
http://purl.org/phylo/treebase/phylows/study/TB2:S2167
- Other versions:
Nexus
NeXML
- Show BibTeX reference
@ARTICLE{TreeBASE2Ref2104,
author = {Gitte Petersen and Ole Seberg},
title = {Stowaway MITEs in Hordeum (Poaceae): Evolutionary History, Ancestral Elements, and Classification.},
year = {2008},
keywords = {},
doi = {},
url = {},
pmid = {},
journal = {Cladistics},
volume = {},
number = {},
pages = {},
abstract = {Given the lack of direct observational data relating to transposition of Stowaway miniature inverted repeat transposable elements phylogenetic methods may provide a means of generating data that adds to our knowledge about these elements. In a phylogenetic framework the evolutionary history of homologous elements may be traced, and the nucleotide sequence of elements at or close to the time of insertion can be reconstructed. Based on a phylogeny of the diploid species of the genus Hordeum we explore evolutionary aspects of four non-homologous groups of Stowaway elements inserted into three nuclear genes: nucellin, xylose isomerase, and barley leucine zipper 1. The data illustrate how elements from a high degree of sequence similarity between terminal inverted repeat regions gradually degrade, and confirm previous notions about preferential insertion at particular TA target sites. It is shown how creation of consensus sequences as estimates of ancestral elements may be positively misleading. The Stowaway family of transposable elements is often further divided into subfamilies based on sequence similarity between element. Sequence similarity data from the elements discovered in the xylose isomerase gene and other element found through BLAST searches in GenBank, reveal inconsistency of the rules used for classification. In order to reflect natural groups a classification of transposable elements must be based on phylogenetic evidence rather than raw similarity.}
}
- Show RIS reference
TY - JOUR
ID - 2104
AU - Petersen,Gitte
AU - Seberg,Ole
T1 - Stowaway MITEs in Hordeum (Poaceae): Evolutionary History, Ancestral Elements, and Classification.
PY - 2008
KW -
UR -
N2 - Given the lack of direct observational data relating to transposition of Stowaway miniature inverted repeat transposable elements phylogenetic methods may provide a means of generating data that adds to our knowledge about these elements. In a phylogenetic framework the evolutionary history of homologous elements may be traced, and the nucleotide sequence of elements at or close to the time of insertion can be reconstructed. Based on a phylogeny of the diploid species of the genus Hordeum we explore evolutionary aspects of four non-homologous groups of Stowaway elements inserted into three nuclear genes: nucellin, xylose isomerase, and barley leucine zipper 1. The data illustrate how elements from a high degree of sequence similarity between terminal inverted repeat regions gradually degrade, and confirm previous notions about preferential insertion at particular TA target sites. It is shown how creation of consensus sequences as estimates of ancestral elements may be positively misleading. The Stowaway family of transposable elements is often further divided into subfamilies based on sequence similarity between element. Sequence similarity data from the elements discovered in the xylose isomerase gene and other element found through BLAST searches in GenBank, reveal inconsistency of the rules used for classification. In order to reflect natural groups a classification of transposable elements must be based on phylogenetic evidence rather than raw similarity.
L3 -
JF - Cladistics
VL -
IS -
ER -
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