The genome of Chenopodium quinoa

David E Jarvis; Yung Shwen Ho; Damien J Lightfoot; Sandra M Schmöckel; Bo Li; Theo J A Borm; Hajime Ohyanagi; Katsuhiko Mineta; Craig T Michell; Noha Saber; Najeh M Kharbatia; Ryan R Rupper; Aaron R Sharp; Nadine Dally; Berin A Boughton; Yong H Woo; Ge Gao; Elio G W M Schijlen; Xiujie Guo; Afaque A Momin; Sónia Negrão; Salim Al-Babili; Christoph 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 Tester

doi:10.1038/nature21370

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The genome of Chenopodium quinoa

David E Jarvis, Yung Shwen Ho, Damien J Lightfoot, Sandra M Schmöckel, Bo Li, Theo J A Borm, Hajime Ohyanagi, Katsuhiko Mineta, Craig T Michell, Noha Saber, …

Nature (London), Vol.542(7641), pp.307-312

02/16/2017

DOI: https://doi.org/10.1038/nature21370

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https://hdl.handle.net/2376/102936

PMID: 28178233

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Abstract

Transcription Factors - metabolism

Diploidy

Polyploidy

Genome, Plant - genetics

Alternative Splicing - genetics

Gene Pool

Molecular Sequence Annotation

Mutation

Sequence Analysis, DNA

Chenopodium quinoa - genetics

Evolution, Molecular

Saponins - biosynthesis

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.

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Title: The genome of Chenopodium quinoa
Creators: David E Jarvis - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Yung Shwen Ho - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Damien J Lightfoot - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Sandra M Schmöckel - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Bo Li - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Theo J A Borm - Wageningen University and Research, Wageningen UR Plant Breeding, Wageningen, The Netherlands
Hajime Ohyanagi - King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Katsuhiko Mineta - King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Computer, Electrical and Mathematical Sciences &Engineering Division (CEMSE), Thuwal, 23955-6900, Saudi Arabia
Craig T Michell - King Abdullah University of Science and Technology (KAUST), Red Sea Research Center (RSRC), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Noha Saber - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Najeh M Kharbatia - King Abdullah University of Science and Technology (KAUST), Analytical Core Lab, Thuwal, 23955-6900, Saudi Arabia
Ryan R Rupper - Brigham Young University, Department of Plant and Wildlife Sciences, College of Life Sciences, Provo, Utah 84602, USA
Aaron R Sharp - Brigham Young University, Department of Plant and Wildlife Sciences, College of Life Sciences, Provo, Utah 84602, USA
Nadine Dally - Plant Breeding Institute, Christian-Albrechts-University of Kiel, Olshausenstr. 40, D-24118 Kiel, Germany
Berin A Boughton - Metabolomics Australia, The School of Biosciences, The University of Melbourne, Parkville, Victoria 3010, Australia
Yong H Woo - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Ge Gao - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Elio G W M Schijlen - PRI Bioscience, Plant Research International, Wageningen UR, Wageningen, The Netherlands
Xiujie Guo - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Afaque A Momin - King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Sónia Negrão - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Salim Al-Babili - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Christoph Gehring - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Ute Roessner - Metabolomics Australia, The School of Biosciences, The University of Melbourne, Parkville, Victoria 3010, Australia
Christian Jung - Plant Breeding Institute, Christian-Albrechts-University of Kiel, Olshausenstr. 40, D-24118 Kiel, Germany
Kevin Murphy - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Stefan T Arold - King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Takashi Gojobori - King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
C Gerard van der Linden - Wageningen University and Research, Wageningen UR Plant Breeding, Wageningen, The Netherlands
Eibertus N van Loo - Wageningen University and Research, Wageningen UR Plant Breeding, Wageningen, The Netherlands
Eric N Jellen - Brigham Young University, Department of Plant and Wildlife Sciences, College of Life Sciences, Provo, Utah 84602, USA
Peter J Maughan - Brigham Young University, Department of Plant and Wildlife Sciences, College of Life Sciences, Provo, Utah 84602, USA
Mark Tester - King Abdullah University of Science and Technology (KAUST), Biological and Environmental Sciences &Engineering Division (BESE), Thuwal, 23955-6900, Saudi Arabia
Publication Details: Nature (London), Vol.542(7641), pp.307-312
Academic Unit: Crop and Soil Sciences, Department of
Publisher: England
Identifiers: 99900546612901842
Language: English
Resource Type: Journal article