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Triticum turgidum strain:Kronos Transcriptome or Gene expression

dataset
posted on 2024-09-29, 05:11 authored by University of California, Davis, Jorge Dubcovsky. University of California, Davis
For this project, we have sequenced, assembled and annotated a transcriptome of a tetraploid wheat T. turgidum cv. Kronos. The sequencing libraries were prepared from root and shoot tissues from young 2-3 week old seedlings, developing spikes at the booting stage and grain 20 days post anthesis. An additional library from multiple tissues was normalized with double-stranded DNA nuclease. All sequencing was carried out on the Illumina HiSeq platform using the 100 bp paired-end protocol (562.4 million reads). The assembly was constructed using a multiple k-mer approach with a de novo assembly algorithm implemented in CLC Genomics Workbench 5.5 and additional redundancy reduction with CD-HIT and blast2cap3 programs. Open reading frames and proteins were predicted using BLASTX searches and a findorf algorithm.

Funding

USDA: 2011-67013-30077

USDA: 2012-67012-19811

HHMI & GBMF: Dubcovsky HHMI support

History

Data contact name

BioProject Curation Staff

Publisher

National Center for Biotechnology Information

Temporal Extent Start Date

2013-02-26

Theme

  • Non-geospatial

ISO Topic Category

  • biota

National Agricultural Library Thesaurus terms

transcriptome; gene expression

Pending citation

  • No

Public Access Level

  • Public

Accession Number

PRJNA191054

Preferred dataset citation

It is recommended to cite the accession numbers that are assigned to data submissions, e.g. the GenBank, WGS or SRA accession numbers. If individual BioProjects need to be referenced, state that "The data have been deposited with links to BioProject accession number PRJNA191054 in the NCBI BioProject database (https://www.ncbi.nlm.nih.gov/bioproject/)."

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