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Data released on March 07, 2013

Genomic data from Triticum urartu - the progenitor of wheat A genome

Gao, C; Liang, Q; Ling, H; Tao, Y; Wang, D; Wang, J; Zhang, A; Zhang, C; Zhao, S (2013): Genomic data from Triticum urartu - the progenitor of wheat A genome GigaScience Database. http://dx.doi.org/10.5524/100050 RIS BibTeX Text

The wheat A genome, as a basic genome of bread wheat and other polyploid wheats, is centrally important to the evolution, domestication, and genetic improvement of wheat. The progenitor of the A genome is the diploid wild einkorn wheat Triticum urartu. Here, we sequenced T. urartu (accession G1812) using a whole-genome shotgun strategy on the Illumina HiSeq 2000 platform, and assembled the genome using SOAPdenovo2 with 448.49 Gb of filtered high-quality sequence data. The genome assembly reached 3.92 Gb (without Ns) with a contig N50 length of 3.42 kb and 4.66 Gb (with Ns) with a scaffold N50 length of 63.69 kb . To facilitate gene prediction, we generated a 116.65 Mb transcriptome of T. urartu with 67.14 Gb RNA-Seq data from eight different tissues and treatments, and 49,935 assembled transcripts from six tissues using the Roche 454 sequencing platform. In total, we predicted 34,879 protein-coding gene models. The average gene size was 3,207 bp, with a mean of 4.7 exons per gene.

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Related manuscripts:

doi:10.1038/nature11997 (PubMed: 23535596)

Accessions (data included in GigaDB):

SRA: SRP005973

Genomic

http://gigadb.org/images/data/cropped/100050_Wildeinkorn.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Triticum urartu4572Wheat A Triticum urartu
Displaying 1-1 of 1 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
Triticum urartuGenome sequenceFASTQ1.24 GB2013-03-07
Triticum urartuGenome sequenceFASTQ1.23 GB2013-03-07
Triticum urartuGenome sequenceFASTQ957.34 MB2013-03-07
Triticum urartuGenome sequenceFASTQ961.2 MB2013-03-07
Triticum urartuGenome sequenceFASTQ1.22 GB2013-03-07
Triticum urartuGenome sequenceFASTQ1.22 GB2013-03-07
Triticum urartuGenome sequenceFASTQ976.28 MB2013-03-07
Triticum urartuGenome sequenceFASTQ976.5 MB2013-03-07
Triticum urartuGenome sequenceFASTQ972.07 MB2013-03-07
Triticum urartuGenome sequenceFASTQ977.38 MB2013-03-07
Displaying 1-10 of 307 File(s).

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