HORIZON 2020 PROJECT PROPOSAL SUMMARY
Contact
person
Call title
Assoc. Prof. Martin A Lysak
Leader of the research group Plant Cytogenomic:
http://www.ceitec.eu/ceitec-mu/plant-cytogenomics/rg45
Central European Institute of Technology, Brno, Czech Republic: www.ceitec.eu
E-mail: martin.lysak@ceitec.muni.cz
Phone: +420 549 49 4154
There is a growing demand on alternative source of bio-fuels...resistant to
pathogenes and adapted to changing environment.
Several emerging oil-seed crops are members of the mustard family (crucifers,
Brassicaceae). We propose to assist/complement efforts to sequence and analyze
genomes of these new oil crop species. Knowledge on genome structure and
genome sequence will facilitate gene discovery and physical mapping, and
chromosome- and sequence-based resources will be crucial for improving these
crops. We propose developing comparative genomics for emerging crucifer oil-seed
crops such as Crambe abyssinica, Lesquerella fandleri and other crucifer species.
ISIB-05-2014
Renewable oil crops as a source of bio-based products
Project title
New oil crop species
Call deadline
12th March 2014
Type of
actions
Research and innovation actions
Basic idea
Call ID
BACKGROUND AND MOTIVATION
We have an extensive expertise (almost 15 years) in the field of genome analysis of crucifer crops,
particularly we investigated the genome structure of oil-seed rape and mustards with several unique
discoveries. Comparative genomics is an effective way of gene discovery and mapping based on the
sequence homeology between sequenced reference genomes and genomes of interest. Being a part
of three international consortia to sequence, assemble and annotate economically and evolutionary
important crucifer genomes, we demonstrated that comparative cytogenomic is an effective tool to
reveal the extent of inter-species genome collinearity, to navigate whole-genome sequence
assembly, and to facilitate genome mapping. This makes our research group well positioned to guide
whole-genome sequencing as well as homeology-based fine-scale gene mapping in genomes of new
crucifer oil-seed crops.
EXPECTED OUTPUTS AND IMPACT
 Establishing comparative genome maps for Lesquerella fendleri, Crambe abyssinica, Camelina
sativa and other crucifer oil-seed species (following interest of collaborating partners).
 Navigation of genome assembly by anchoring sequence contigs resulting from next-generation
sequencing of these genomes.
 Fine-scale chromosome mapping of low- and single-copy DNA sequences (genes).
Masaryk University | IN: 00216224
Central European Institute of Technology
Kamenice 753/5, CZ-62500 Brno, Czech Republic
www.ceitec.muni.cz | info@ceitec.muni.cz
 facilitation of mapping of genes of interest
We offer the above mentioned idea and our expertise in plant cytogenomics to collaborative research
as a partner of a consortium which intends to apply for such a project. We will introduce a “new EU
Member State” into the project and increase the geographic coverage of the project impact to Central
and Easter Europe.
SELECTED PUBLICATIONS
Mandakova, T., Kovarik, A., Zozomova-Lihova, J., Shimizu-Inatsugi, R., Shimizu, K., Mummenhoff, K.,
Marhold, K., Lysak, M. A., 2013: The More the Merrier: Recent Hybridization and Polyploidy in
Cardamine. Plant Cell 25 (9), 3280-3295
Haudry, A., Platts, A. E., Vello, E., Hoen, D., Leclerq, M., Williamson, R., Forczek, E., Joly-Lopez, Z.,
Steffen, J., Hazzouri, K. M., Dewar, K., Stinchcombe, J. R., Schoen, D. J., Wang, X., Schmutz,
J., Town, C. D., Edger, P. P., Pires, J. C., Schumaker. S., Jarvis, D. E., Mandáková, T., Lysak,
M. A., Schranz, M. E., Van Den Bergh, E., Hrrison, P., Moses, A. M., Bureau, T. E., Wright, S.
I., Blanchette, M., 2013:An Atlas of over 90,000 Conserved Non-Coding Sequences Yields
Detailed Insight into Crucifer Regulatory Regions. Nature Genetics 45(8), p. 891-U228.
Cheng, F., Mandakova, T., Wu, J., Xie, Q., Lysak, M. A., Wang, X., 2013:Deciphering the Diploid
Ancestral Genome of the Mesohexaploid Brassica rapa. PLANT CELL 25 (5), p. 1541 - 1554.
Long, Q., Rabanal, F. A. , Meng, D. , Huber, C. D., Farlow, A., Platzer, A., Zhang, Q., Vilhjámsson, B.
J., Korte, A., Nizhynska, V., Voronin, V., Korte, P., Sedman, L., Mandáková, T., Lysak, M. A.,
Seren, U., Hellmann, I., Nordborg, M., 2013:Massive genomic variation and strong selection in
Arabidopsis thaliana lines from Sweden. Nature Genetics 45 (8), p. 884 - U218.
Slotte, T., Lysak MA., et al., 2013: The Capsella rubella genome and the genomic consequences of
rapid mating system evolution. Nature Genetics, 45(7), p. 831-U165.
CEITEC – A BRIEF INTRODUCTION
CEITEC (Central European Institute of Technology) is a joint initiative of six partners to develop a
European centre of excellence. It is being implemented by a consortium of the most prominent
Brno universities (Masaryk University, Brno University of Technology) and other four research
institutes.
The state-of-art instrumentation and technologies will enable interdisciplinary research in the
subjects of life and material sciences on all currently available levels of complexity.
The major source of funding is the European Regional Development Fund, specifically the Operational
Programme Research and Development for Innovations, priority axis 1 – European Centres of
Excellence. The overall budget is € 208 mil.
CEITEC is based on the synergy of 7 research programmes.
One of the scientific programmes is Genomics and Proteomics of Plant Systems comprising eleven
research groups. It was established with focus on understanding the evolutionary-based strategies of
plant systems to promote their applications in next-generation technologies and medicine.
Masaryk University | IN: 00216224
Central European Institute of Technology
Kamenice 753/5, CZ-62500 Brno, Czech Republic
www.ceitec.muni.cz | info@ceitec.muni.cz