Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives

Menzel G, Krebs C, Diez M, Holtgräwe D, Weisshaar B, Minoche AE, Dohm JC, Himmelbauer H, Schmidt T (2012)
Plant Molecular Biology 78(4-5): 393-405.

Journal Article | Published | English

No fulltext has been uploaded

Author
; ; ; ; ; ; ; ;
Abstract
Genome-wide analyses of repetitive DNA suggest a significant impact particularly of transposable elements on genome size and evolution of virtually all eukaryotic organisms. In this study, we analyzed the abundance and diversity of the hAT transposon superfamily of the sugar beet (B. vulgaris) genome, using molecular, bioinformatic and cytogenetic approaches. We identified 81 transposase-coding sequences, three of which are part of structurally intact but nonfunctional hAT transposons (BvhAT), in a B. vulgaris BAC library as well as in whole genome sequencing-derived data sets. Additionally, 116 complete and 497 truncated non-autonomous BvhAT derivatives lacking the transposase gene were in silico-detected. The 116 complete derivatives were subdivided into four BvhATpin groups each characterized by a distinct terminal inverted repeat motif. Both BvhAT and BvhATpin transposons are specific for species of the genus Beta and closely related species, showing a localization on B. vulgaris chromosomes predominantely in euchromatic regions. The lack of any BvhAT transposase function together with the high degree of degeneration observed for the BvhAT and the BvhATpin genomic fraction contrasts with the abundance and activity of autonomous and non-autonomous hAT transposons revealed in other plant species. This indicates a possible genus-specific structural and functional repression of the hAT transposon superfamily during Beta diversification and evolution.
Publishing Year
ISSN
eISSN
PUB-ID

Cite this

Menzel G, Krebs C, Diez M, et al. Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives. Plant Molecular Biology. 2012;78(4-5):393-405.
Menzel, G., Krebs, C., Diez, M., Holtgräwe, D., Weisshaar, B., Minoche, A. E., Dohm, J. C., et al. (2012). Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives. Plant Molecular Biology, 78(4-5), 393-405.
Menzel, G., Krebs, C., Diez, M., Holtgräwe, D., Weisshaar, B., Minoche, A. E., Dohm, J. C., Himmelbauer, H., and Schmidt, T. (2012). Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives. Plant Molecular Biology 78, 393-405.
Menzel, G., et al., 2012. Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives. Plant Molecular Biology, 78(4-5), p 393-405.
G. Menzel, et al., “Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives”, Plant Molecular Biology, vol. 78, 2012, pp. 393-405.
Menzel, G., Krebs, C., Diez, M., Holtgräwe, D., Weisshaar, B., Minoche, A.E., Dohm, J.C., Himmelbauer, H., Schmidt, T.: Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives. Plant Molecular Biology. 78, 393-405 (2012).
Menzel, Gerhard, Krebs, Carmen, Diez, Mercedes, Holtgräwe, Daniela, Weisshaar, Bernd, Minoche, Andre E., Dohm, Juliane C., Himmelbauer, Heinz, and Schmidt, Thomas. “Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives”. Plant Molecular Biology 78.4-5 (2012): 393-405.
This data publication is cited in the following publications:
This publication cites the following data publications:

3 Citations in Europe PMC

Data provided by Europe PubMed Central.

SBMDb: first whole genome putative microsatellite DNA marker database of sugarbeet for bioenergy and industrial applications.
Iquebal MA, Jaiswal S, Angadi UB, Sablok G, Arora V, Kumar S, Rai A, Kumar D., Database (Oxford) 2015(), 2015
PMID: 26647370
The diversification and activity of hAT transposons in Musa genomes.
Menzel G, Heitkam T, Seibt KM, Nouroz F, Muller-Stoermer M, Heslop-Harrison JS, Schmidt T., Chromosome Res. 22(4), 2014
PMID: 25377178
The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation.
Zakrzewski F, Schubert V, Viehoever P, Minoche AE, Dohm JC, Himmelbauer H, Weisshaar B, Schmidt T., Plant J. 78(6), 2014
PMID: 24661787

57 References

Data provided by Europe PubMed Central.

Retrotransposon BARE-1 and Its Role in Genome Evolution in the Genus Hordeum.
Vicient CM, Suoniemi A, Anamthawat-Jonsson K, Tanskanen J, Beharav A, Nevo E, Schulman AH., Plant Cell 11(9), 1999
PMID: 10488242
Genome-wide distribution of transposed Dissociation elements in maize.
Vollbrecht E, Duvick J, Schares JP, Ahern KR, Deewatthanawong P, Xu L, Conrad LJ, Kikuchi K, Kubinec TA, Hall BD, Weeks R, Unger-Wallace E, Muszynski M, Brendel VP, Brutnell TP., Plant Cell 22(6), 2010
PMID: 20581308
A unified classification system for eukaryotic transposable elements.
Wicker T, Sabot F, Hua-Van A, Bennetzen JL, Capy P, Chalhoub B, Flavell A, Leroy P, Morgante M, Panaud O, Paux E, SanMiguel P, Schulman AH., Nat. Rev. Genet. 8(12), 2007
PMID: 17984973
A rice Tc1/mariner-like element transposes in yeast.
Yang G, Weil CF, Wessler SR., Plant Cell 18(10), 2006
PMID: 17041148

Export

0 Marked Publications

Open Data PUB

Web of Science

View record in Web of Science®

Sources

PMID: 22246381
PubMed | Europe PMC

Search this title in

Google Scholar