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. 2022 Jun 6:11:614.
doi: 10.12688/f1000research.121637.1. eCollection 2022.

The complete genome sequence of elite bread wheat cultivar, "Sonmez"

Bala Ani Akpinar  1 , Philippe Leroy  2 , Nathan Watson-Haigh  3   4   5 , Ute Baumann  3 , Valerie Barbe  6 , Hikmet Budak  1
Affiliations

The complete genome sequence of elite bread wheat cultivar, "Sonmez"

Bala Ani Akpinar et al. F1000Res. .

Abstract

High-yielding crop varieties will become critical in meeting the future food demand in the face of worsening weather extremes and threatening biotic stressors. The bread wheat cultivar Sonmez-2001 is a registered variety that is notable for its performance under low-irrigation conditions, which further improves upon irrigation. Additionally, Sonmez-2001 is resilient against certain biotic stressors, particularly soil-borne pathogens. Here, we provide a reference-guided whole genome sequence of Sonmez-2001, assembled into 21 chromosomes of the A, B and D genomes and totaling 13.3 gigabase-pairs in length. Additionally, a de novo assembly of an additional 1.05 gigabase-pairs was generated that represents either Sonmez-specific sequences or sequences that considerably diverged between Sonmez and Chinese Spring. Within this de novo assembly, we identified 35 gene models, of which 11 were high-confidence, that may contribute to the favorable traits of this high-performing variety. We identified up to 24 million sequence variants, of which up to 2.4% reside in coding sequences, that can be used to develop molecular markers that should be of immediate use to the cereal community.

Keywords: Sonmez; Triticum aestivum; Wheat; genome sequencing; yield.

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Conflict of interest statement

Competing interests: H. Budak and A. Akpinar are employed by Montana BioAgriculture Inc. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.

References

    1. IWGSC: Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science 2018;361(6403). 10.1126/science.aar7191 - DOI - PubMed
    1. Langmead B, Salzberg S: Fast gapped-read alignment with Bowtie 2. Nat. Methods 2012;9:357–359. 10.1038/nmeth.1923 - DOI - PMC - PubMed
    1. Tarasov A, Vilella AJ, Cuppen E, et al. : Sambamba: fast processing of NGS alignment formats. Bioinformatics 2015;31(12):2032–2034. 10.1093/bioinformatics/btv098 - DOI - PMC - PubMed
    1. Danecek P, Bonfield JK, Liddle J, et al. : Twelve years of SAMtools and BCFtools. GigaScience. 2021;10(2):giab008. 10.1093/gigascience/giab008 - DOI - PMC - PubMed
    1. Cingolani P, Platts A, Wang le L, et al. : A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly 2012;6(2):80–92. 10.4161/fly.19695 - DOI - PMC - PubMed

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