Jérôme Gouzy
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Baptiste Mayjonade
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Christopher J. Grassa
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Sébastien Carrère
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Erika Sallet
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Ludovic Legrand
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Nicolas Pouilly
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Marie-Claude Boniface
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Nicolas Blanchet
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Brigitte Mangin
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Navdeep Gill
,
University of British Columbia, Vancouver, BC, Canada
Thuy Nguyen
,
University of British Columbia, Vancouver, BC, Canada
John E. Bowers
,
Department of Plant Biology, University of Georgia, Athens, GA
Cécile Donnadieu
,
Plateforme Genomique, Castanet tolosan, France
Nolan Kane
,
University of Colorado, Boulder, CO
Hélène Bergès
,
INRA - CNRGV, Castanet Tolosan, France
John M. Burke
,
Department of Plant Biology, University of Georgia, Athens, GA
Loren H. Rieseberg
,
University of British Columbia, Vancouver, BC, Canada
Stéphane Muños
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, Castanet-Tolosan, France
Nicolas Langlade
,
Laboratoire des Interactions Plantes Micro-organismes (LIPM) - INRA/CNRS, TOULOUSE, France
The sunflower (Helianthus annuus) genome is large (17 chromosomes spanning 3.6Gb) and complex. It has been shown to be composed of over 81% of transposable elements: mostly recent duplication of Gypsy and Copia Long-Terminal-Repeat elements (Staton et al., 2012). Our strategy using short Roche and Illumina reads from a range of librairy sizes, combined with a high density genetic map and a Finger Printing Contig physical map coud not completely to solve the great complexity of this genome.
In this context, within the SUNRISE project, we started an ambitious approach to generate a high quality genome sequence of the INRA line XRQ, by exploiting the PacBio RSII sequencing progresses. We produced, in majority on the INRA Toulouse sequencer, over 102X of long subreads (MEAN 9.8kb, N50 13.7kb, MAX 80.9kb). After correction using genetic information, the assembly process allowed us to produce 12718 contigs corresponding to 2.93Gb of sequence (MEAN 238kb, N50 524kb, MAX 3 350kb) that were scaffolded using geneitc and physical mapping informations.
In this talk, we will present our approach, the overall assembly process and a first analysis of the genome annotation together with the webportal (www.heliagene.org) functionnalities where we provide this reference genome to the community.
