Triticum aestivum cultivars
Overview
The 10+ Wheat Genomes Project is a global partnership that leverages collaborative expertise and funding with the aim to characterise the wheat pan-genome. Created in 2011 following endorsement from the G20 Agriculture Ministries, the Wheat Initiative provides a framework to establish strategic research and organization priorities for wheat research at the international level in both developed and developing countries. Seeds of all cultivars included in the project can be ordered for research use through the Germplasm Resources Unit at the John Innes Centre, UK. This also includes additional info about country source and sowing season. Please visit the SeedStor for more information.
10+ Wheat Genome Lines
The 10+ Wheat Genome Project has completed its goal of generating chromosome pseudomolecule assemblies for 10 wheat cultivars and 5 scaffold assemblies. These cultivars were selected by each of the global partners to represent genetic diversity typical of breeding programs in their agroecological zones. Genome sequences have been assembled to reference quality using the NRgene DeNovo Magic 3.0 software for pseudomolecule assemblies.
Genes
High confidence de novo predictions called by PGSB and EI are available for chromosome level assemblies.
Projected genes are also available for all assemblies from the IWGSC RefSeq v1.1 annotation.
UK Wheat Lines
Five wheat lines chosen for their importance in breeding and research in the United Kingdom have been sequenced and displayed in Ensembl as part of our contribution to the Designing Future Wheat project. This includes Claire, Cadenza, Paragon, Robigus and Weebill.
These scaffold-level assemblies were sequenced at the Earlham Institute as part of the wheat pan genome. Sequencing was performed on an Illumina HiSeq 2500 instrument with a 2x250 bp read metric targeting 45x raw coverage of the amplification-free library and 25x coverage of a combination of mate-pair libraries with inserts sizes >7 Kbp. Between 44 and 51x paired-end genome coverage was generated per line. Contigging was performed using the w2rap-contigger using k=200. Two mate-pair libraries were produced for each line except Weebill, where five libraries were used. Mate-pairs were processed, filtered and used to scaffold contigs as described in the w2rap pipeline. Scaffolds less than 500bp were removed from the final assemblies. The K-mer Analysis Toolkit was used to validate scaffolds by generating a kmer histogram from the matrix of kmers shared between the paired-end reads and the scaffolds.
IWGSC RefSeq v2.1
The genome assembly of the reference Triticum aestivum cv. Chinese Spring (IWGSC RefSeq v1.0) was revised using whole genome optical maps and contigs assembled from whole-genome-shotgun (WGS) PacBio SMRT reads. PacBio contigs were used for gap closing. Pseudomolecules of the Chinese Spring 21 chromosomes were re-constructed to develop a new reference sequence, IWGSC RefSeq v2.1. The revisions involved approximately 10% sequence length of the IWGSC RefSeq v1.0.
- Walkowiak, S., Gao, L., Monat, C. et al. Multiple wheat genomes reveal global variation in modern breeding. Nature (2020). https://doi.org/10.1038/s41586-020-2961-x
- Tingting Zhu, Le Wang, Hélène Rimbert et al. Optical maps refine the bread wheat Triticum aestivum cv. Chinese Spring genome assembly. The Plant Journal (2021). https://onlinelibrary.wiley.com/doi/epdf/10.1111/tpj.15289
Cultivar | Scientific name | Ensembl Assembly | Accession | More information |
---|---|---|---|---|
Triticum aestivum Arinalrfor View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_903993985.1 | |
Triticum aestivum Cadenza View example location | Karyotype and statistics | Triticum aestivum | EIv1.1 | GCA_902810645.1 | |
Triticum aestivum Claire View example location | Karyotype and statistics | Triticum aestivum | EIv1.1 | GCA_902810655.1 | |
Triticum aestivum Jagger View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_903993795.1 | |
Triticum aestivum Julius View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_903994195.1 | |
Triticum aestivum Kariega View example location | Karyotype and statistics | Triticum aestivum | Tae_Kariega_v1 | GCA_910594105.1 | |
Triticum aestivum Lancer View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_903993975.1 | |
Triticum aestivum Landmark View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_903995565.1 | |
Triticum aestivum Mace View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_903994175.1 | |
Triticum aestivum Sy Mattis View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_903994185.1 | |
Triticum aestivum Norin61 View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.1 | GCA_904066035.1 | |
Triticum aestivum Paragon View example location | Karyotype and statistics | Triticum aestivum | EIv1.1 | GCA_902810665.1 | |
Triticum aestivum Refseqv2 View example location | Karyotype and statistics | Triticum aestivum | IWGSC_RefSeq_v2.1 | GCA_018294505.1 | |
Triticum aestivum Renan View example location | Karyotype and statistics | Triticum aestivum | Triticum_aestivum_Renan_v2.1 | GCA_937894285.1 | |
Triticum aestivum Robigus View example location | Karyotype and statistics | Triticum aestivum | EIv1.1 | GCA_902810685.1 | |
Triticum aestivum Stanley View example location | Karyotype and statistics | Triticum aestivum | PGSBv2.2 | GCA_903994155.1 | |
Triticum aestivum Weebill View example location | Karyotype and statistics | Triticum aestivum | WeebilV1 | GCA_902810675.1 |