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De novo transcriptome assembly of Sorghum bicolor variety Taejin.

ABSTRACT: Sorghum (Sorghum bicolor), also known as great millet, is one of the most popular cultivated grass species in the world. Sorghum is frequently consumed as food for humans and animals as well as used for ethanol production. In this study, we conducted de novo transcriptome assembly for sorghum variety Taejin by next-generation sequencing, obtaining 8.748 GB of raw data. The raw data in this study can be available in NCBI SRA database with accession number of SRX1715644. Using the Trinity program, we identified 222,161 transcripts from sorghum variety Taejin. We further predicted coding regions within the assembled transcripts by the TransDecoder program, resulting in a total of 148,531 proteins. We carried out BLASTP against the Swiss-Prot protein sequence database to annotate the functions of the identified proteins. To our knowledge, this is the first transcriptome data for a sorghum variety derived from Korea, and it can be usefully applied to the generation of genetic markers.

SUBMITTER: Jo Y

PROVIDER: S-EPMC4878842 | biostudies-literature | 2016 Jun

REPOSITORIES: biostudies-literature

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De novo transcriptome assembly of Sorghum bicolor variety Taejin.

Jo Yeonhwa Y Lian Sen S Cho Jin Kyong JK Choi Hoseong H Kim Sang-Min SM Kim Sun-Lim SL Lee Bong Choon BC Cho Won Kyong WK

Genomics data 20160505

Sorghum (Sorghum bicolor), also known as great millet, is one of the most popular cultivated grass species in the world. Sorghum is frequently consumed as food for humans and animals as well as used for ethanol production. In this study, we conducted de novo transcriptome assembly for sorghum variety Taejin by next-generation sequencing, obtaining 8.748 GB of raw data. The raw data in this study can be available in NCBI SRA database with accession number of SRX1715644. Using the Trinity program, ...[more]

PMID: 27257604

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