The genome of Chenopodium quinoa

David Erwin Jarvis, Ho Shwen, Damien Lightfoot, Sandra M. Schmöckel, Bo Li, Theo J. A. Borm, Hajime Ohyanagi, Katsuhiko Mineta, Craig Michell, Noha Saber, Najeh M. Kharbatia, Ryan R. Rupper, Aaron R. Sharp, Nadine Dally, Berin A. Boughton, Yong Woo, Ge Gao, Elio G. W. M. Schijlen, Xiujie Guo, Afaque Ahmad Imtiyaz MominSónia Negrão, Salim Al-Babili, Christoph A Gehring, Ute Roessner, Christian Jung, Kevin Murphy, Stefan T. Arold, Takashi Gojobori, C. Gerard van der Linden, Eibertus N. van Loo, Eric N. Jellen, Peter J. Maughan, Mark A. Tester

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365 Scopus citations

Abstract

Chenopodium quinoa (quinoa) is a highly nutritious grain identified as an important crop to improve world food security. Unfortunately, few resources are available to facilitate its genetic improvement. Here we report the assembly of a high-quality, chromosome-scale reference genome sequence for quinoa, which was produced using single-molecule real-time sequencing in combination with optical, chromosome-contact and genetic maps. We also report the sequencing of two diploids from the ancestral gene pools of quinoa, which enables the identification of sub-genomes in quinoa, and reduced-coverage genome sequences for 22 other samples of the allotetraploid goosefoot complex. The genome sequence facilitated the identification of the transcription factor likely to control the production of anti-nutritional triterpenoid saponins found in quinoa seeds, including a mutation that appears to cause alternative splicing and a premature stop codon in sweet quinoa strains. These genomic resources are an important first step towards the genetic improvement of quinoa.
Original languageEnglish (US)
Pages (from-to)307-312
Number of pages6
JournalNature
Volume542
Issue number7641
DOIs
StatePublished - Feb 8 2017

Bibliographical note

KAUST Repository Item: Exported on 2020-10-01
Acknowledgements: Research reported in this publication was supported by the King Abdullah University of Science and Technology (KAUST), by USDA/NIFA-REEIS grant #2012-51300-20100 (WSU/BYU), by NSF grant #1339412, and by a grant from the German Research Foundation, DFG (grant no. JU205/24-1). We thank T. Ramaraj from the National Center for Genomic Resources (Santa Fe) for his bioinformatics assistance, O. Mohammed Eid Alharbi at the KAUST Imaging and Characterization Laboratory for generating SEM images, K. Zemmouri at the KAUST Greenhouse for plant care, and H. Ho (Heno) Hwang and I. D. Gromicho at the KAUST Academic Writing Department for assistance with quinoa illustrations and photographs. We also thank H. Štorchová, F. Morton, D. Bertero, F. Fuentes and D. Brenner of USDA-ARS-NPGS for their assistance in providing seeds.

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  • Chenopodium quinoa cultivar:QQ74 Genome sequencing and assembly

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    Jarvis, D. E. (Creator), Lightfoot, D. (Creator), Schmöckel, S. M. (Creator), Li, B. (Creator), Borm, T. J. A. (Creator), Ohyanagi, H. (Creator), Mineta, K. (Creator), Michell, C. (Creator), Saber, N. (Creator), Kharbatia, N. M. (Creator), Rupper, R. R. (Creator), Sharp, A. R. (Creator), Dally, N. (Creator), Boughton, B. A. (Creator), Woo, Y. (Creator), Gao, G. (Creator), Schijlen, E. G. W. M. (Creator), Guo, X. (Creator), Momin, A. A. I. (Creator), Negrão, S. (Creator), Al-Babili, S. (Creator), Gehring, C. A. (Creator), Roessner, U. (Creator), Jung, C. (Creator), Murphy, K. (Creator), Arold, S. (Creator), Gojobori, T. (Creator), Linden, C. G. V. D. (Creator), Loo, E. N. V. (Creator), Jellen, E. N. (Creator), Maughan, P. J. (Creator), Tester, M. A. (Creator), Shwen, H. (Creator), Jarvis, D. E. (Creator), Lightfoot, D. (Creator), Borm, T. J. A. (Creator), Michell, C. (Creator), Kharbatia, N. M. (Creator), Rupper, R. R. (Creator), Sharp, A. R. (Creator), Dally, N. (Creator), Boughton, B. A. (Creator), Woo, Y. (Creator), Schijlen, E. G. W. M. (Creator), Momin, A. A. I. (Creator), Gehring, C. A. (Creator), Roessner, U. (Creator), Jung, C. (Creator), Murphy, K. (Creator), Linden, C. G. V. D. (Creator), Loo, E. N. V. (Creator), Jellen, E. N. (Creator), Maughan, P. J. (Creator), Tester, M. A. (Creator) & Shwen, H. (Creator), NCBI, Jul 18 2016

    Dataset

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