A mosaic monoploid reference sequence for the highly complex genome of sugarcane

Sugarcane (Saccharum spp.) is a major crop for sugar and bioenergy production. Its highly polyploid, aneuploid, heterozygous, and interspecific genome poses major challenges for producing a reference sequence. We exploited colinearity with sorghum to produce a BAC-based monoploid genome sequence of sugarcane. A minimum tiling path of 4660 sugarcane BAC that best covers the gene-rich part of the sorghum genome was selected based on whole-genome profiling, sequenced, and assembled in a 382-Mb single tiling path of a high-quality sequence. A total of 25,316 protein-coding gene models are predicted, 17% of which display no colinearity with their sorghum orthologs. We show that the two species, S. officinarum and S. spontaneum, involved in modern cultivars differ by their transposable elements and by a few large chromosomal rearrangements, explaining their distinct genome size and distinct basic chromosome numbers while also suggesting that polyploidization arose in both lineages after their divergence.

Bibliographic Details

Main Authors:	Garsmeur, Olivier, Droc, Gaëtan, Antonise, Rudie, Grimwood, Jane, Potier, Bernard, Aitken, Karen S., Jenkins, Jerry, Martin, Guillaume, Charron, Carine, Hervouet, Catherine, Costet, Laurent, Yahiaoui, Nabila, Healey, Adam, Sims, David, Cherukuri, Yesesri, Sreedasyam, Avinash, Kilian, Andrzej, Chan, Agnes P., Van Sluys, Marie-Anne, Swaminathan, Kankshita, Town, Christopher, Berges, Hélène, Simmons, Blake, Glaszmann, Jean-Christophe, Van der Vossen, Edwin, Henry, Robert, Schmutz, Jeremy, D'Hont, Angélique
Format:	article biblioteca
Language:	eng
Subjects:	F30 - Génétique et amélioration des plantes, Saccharum, génome, Saccharum officinarum, génétique, variété, amélioration des plantes, Saccharum spontaneum, http://aims.fao.org/aos/agrovoc/c_6725, http://aims.fao.org/aos/agrovoc/c_3224, http://aims.fao.org/aos/agrovoc/c_6727, http://aims.fao.org/aos/agrovoc/c_3222, http://aims.fao.org/aos/agrovoc/c_8157, http://aims.fao.org/aos/agrovoc/c_5956, http://aims.fao.org/aos/agrovoc/c_6729, http://aims.fao.org/aos/agrovoc/c_6543, http://aims.fao.org/aos/agrovoc/c_3081,
Online Access:	http://agritrop.cirad.fr/588300/ http://agritrop.cirad.fr/588300/1/Garsmeur_et_al-2018-Nature_Communications.pdf
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