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Contact Info

Björn Usadel.
Worringer Weg 1
52062 Aachen
Germany
Email: usadel /ta/ mpimp-golm.mpg.de
usadel /ta/ bio1.rwth-aachen.de

Phone: +49 241 80 26634
You are here: Overview » Projects (some)

Projects (some)

Pennellii genome sequencing

We are sequencing the Solanum pennellii genome de-novo using mostly Illumina short read data. We are also resequencing the M82 tomato cultivar.

Both of these gave rise to the widely used IL population from Dani Zamir's lab.

Currently the latest assembyl comprises more than 100x coverage and features a scaffold N50 of more than 1.5MBp, an n:N50 of less than 2000 and a total size of nearly 900 Mbases.

For assembly we use  a mixture of SOPAdenovo SSPACE as well as some custom made tools for clipping, QC, removal and post-curation.

This is a mostly Max Planck Society funded Project, with siginificant contributions from Wageningen and Cornell Universities.

If you are interested in gaining access to this please contact us. Given that this is currently unpublished we would appreciate your informing us regarding potential use of the data in any publication from your own laboratory. In the instance that you would like to use a substantial amount of our de-novo sequencing data (and by the way we have also resequenced the M82 genome), we would very much appreciate if you agreed to offer a single co-authorship to one of our sequencing consortium. The reasons behind this are two-fold firstly to satisfy our funders and secondly to ensure that the vast effort by the many people involved in compiling this data is fairly acknowledged. We chose to limit this to a single author, in a minor position on the paper, as we hope that this will be regarded as fair and reasonable. In cases wherein people ask us only to provide them the pennellii sequence for a single or handful of gene(s) or markers we would request that The pennellii genome sequencing consortium sponsored by the Max-Planck-Society was cited in the text and Acknowledgements. Please email usadel#bio1.rwth-aachen.de and fernie#mpimp-golm.mpg.de to discuss these matters