Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites
<p>Abstract</p> <p>Background</p> <p>Compound microsatellites are a special variation of microsatellites in which two or more individual microsatellites are found directly adjacent to each other. Until now, such composite microsatellites have not been investigated in a...
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doaj-6bd78c088a814fa2a596b812cabfc8742020-11-25T02:33:35ZengBMCBMC Genomics1471-21642008-12-019161210.1186/1471-2164-9-612Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellitesLelley TamasLuschützky EvitaSchlötterer ChristianKofler Robert<p>Abstract</p> <p>Background</p> <p>Compound microsatellites are a special variation of microsatellites in which two or more individual microsatellites are found directly adjacent to each other. Until now, such composite microsatellites have not been investigated in a comprehensive manner.</p> <p>Results</p> <p>Our <it>in silico </it>survey of microsatellite clustering in genomes of <it>Homo sapiens</it>, <it>Maccaca mulatta</it>, <it>Mus musculus</it>, <it>Rattus norvegicus</it>, <it>Ornithorhynchus anatinus</it>, <it>Gallus gallus</it>, <it>Danio rerio </it>and <it>Drosophila melanogaster </it>revealed an unexpected high abundance of compound microsatellites. About 4 – 25% of all microsatellites could be categorized as compound microsatellites. Compound microsatellites are approximately 15 times more frequent than expected under the assumption of a random distribution of microsatellites. Interestingly, microsatellites do not only tend to cluster but the adjacent repeat types of compound microsatellites have very similar motifs: in most cases (>90%) these motifs differ only by a single mutation (base substitution or indel). We propose that the majority of the compound microsatellites originates by duplication of imperfections in a microsatellite tract. This process occurs mostly at the end of a microsatellite, leading to a new repeat type and a potential microsatellite repeat track.</p> <p>Conclusion</p> <p>Our findings suggest a more dynamic picture of microsatellite evolution than previously believed. Imperfections within microsatellites might not only cause the "death" of microsatellites they might also result in their "birth".</p> http://www.biomedcentral.com/1471-2164/9/612 |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Lelley Tamas Luschützky Evita Schlötterer Christian Kofler Robert |
spellingShingle |
Lelley Tamas Luschützky Evita Schlötterer Christian Kofler Robert Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites BMC Genomics |
author_facet |
Lelley Tamas Luschützky Evita Schlötterer Christian Kofler Robert |
author_sort |
Lelley Tamas |
title |
Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites |
title_short |
Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites |
title_full |
Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites |
title_fullStr |
Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites |
title_full_unstemmed |
Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites |
title_sort |
survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites |
publisher |
BMC |
series |
BMC Genomics |
issn |
1471-2164 |
publishDate |
2008-12-01 |
description |
<p>Abstract</p> <p>Background</p> <p>Compound microsatellites are a special variation of microsatellites in which two or more individual microsatellites are found directly adjacent to each other. Until now, such composite microsatellites have not been investigated in a comprehensive manner.</p> <p>Results</p> <p>Our <it>in silico </it>survey of microsatellite clustering in genomes of <it>Homo sapiens</it>, <it>Maccaca mulatta</it>, <it>Mus musculus</it>, <it>Rattus norvegicus</it>, <it>Ornithorhynchus anatinus</it>, <it>Gallus gallus</it>, <it>Danio rerio </it>and <it>Drosophila melanogaster </it>revealed an unexpected high abundance of compound microsatellites. About 4 – 25% of all microsatellites could be categorized as compound microsatellites. Compound microsatellites are approximately 15 times more frequent than expected under the assumption of a random distribution of microsatellites. Interestingly, microsatellites do not only tend to cluster but the adjacent repeat types of compound microsatellites have very similar motifs: in most cases (>90%) these motifs differ only by a single mutation (base substitution or indel). We propose that the majority of the compound microsatellites originates by duplication of imperfections in a microsatellite tract. This process occurs mostly at the end of a microsatellite, leading to a new repeat type and a potential microsatellite repeat track.</p> <p>Conclusion</p> <p>Our findings suggest a more dynamic picture of microsatellite evolution than previously believed. Imperfections within microsatellites might not only cause the "death" of microsatellites they might also result in their "birth".</p> |
url |
http://www.biomedcentral.com/1471-2164/9/612 |
work_keys_str_mv |
AT lelleytamas surveyofmicrosatelliteclusteringineightfullysequencedspeciesshedslightontheoriginofcompoundmicrosatellites AT luschutzkyevita surveyofmicrosatelliteclusteringineightfullysequencedspeciesshedslightontheoriginofcompoundmicrosatellites AT schlottererchristian surveyofmicrosatelliteclusteringineightfullysequencedspeciesshedslightontheoriginofcompoundmicrosatellites AT koflerrobert surveyofmicrosatelliteclusteringineightfullysequencedspeciesshedslightontheoriginofcompoundmicrosatellites |
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