Structural variants detection and de novo genome assembly of a Maize line

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Eché, Camille | Birbes, Clement | Iampietro, Carole | Di Franco, Arnaud | Dreau, Andreea | Kuchly, Claire | Klopp, Christophe | Faraut, Thomas | Zytnicki, Matthias | Denis, Erwan | Praud, Sebastien | Joets, Johann | Vitte, Clémentine | Charcosset, Alain | Gaspin, Christine | Milan, Denis | Donnadieu, Cecile

Edité par CCSD -

International audience. Characterizing the genomic diversity of species is critical to understand the molecular origin of phenotypic variations. Whole genome sequence assemblies at the chromosome scale with low amount of missing data are critical resources for answering such questions. Our aim is to explore combination of technologies to answer those questions, and to find the best one. Using a specific Maize line, we have tested different sequencing applications to build a "high quality genome" and identify a large collection of genome variants. Here we demonstrate that the use of HIFI reads combined with Hi-C and Linked-reads generate a chromosome-scale genome assembly with a better contiguity than the reference genome B73. Moreover we show, that PacBio CLR reads allow a wide detection of structural variants of the genomes.

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