Čeština
EnglishDe novo transcriptome assembly of heavy metal tolerant Silene dioica
Cegan, R., Hudzieczek, V., Hobza, R.
GENOMICS DATA 11: 118-119, 2017
Keywords: Silene dioica, RNA-Seq, Transcriptome, Heavy metal tolerance, Sex chromosomes
Abstract: Silene dioica is a dioecious plant of the family Caryophyllaceae. In the present study, we used Illumina sequencing technology (MiSeq) to sequence, de novo assembly and annotate the transcriptomes of male and female copper tolerant S. dioica individuals.We sequenced the normalized mRNA of roots, shoots, flower buds and flowers for each sex. Rawreads of the transcriptome assembly project for S. dioica male and female individual have been deposited in NCBI's Sequence Read Archive (SRA) databasewith the accession number SRP094611. The Trinity and Detonate program was used to de novo assembly 92,347 transcripts for male and 94,757 transcripts for female transcriptome. The assembled transcriptome sequences for S. dioica male and female individuals can be accessed at NCBI with the following accession numbers: GFCG00000000 (male); GFCH00000000 (female). The obtained transcriptomic data will be useful for further studies focusing on copper tolerance, comparative transcriptome analysis with other Silene species and sex chromosomes evolution.
DOI: 10.1016/j.gdata.2017.01.004
Fulltext: contact IEB authors
IEB authors: Roman Hobza
GENOMICS DATA 11: 118-119, 2017
Keywords: Silene dioica, RNA-Seq, Transcriptome, Heavy metal tolerance, Sex chromosomes
Abstract: Silene dioica is a dioecious plant of the family Caryophyllaceae. In the present study, we used Illumina sequencing technology (MiSeq) to sequence, de novo assembly and annotate the transcriptomes of male and female copper tolerant S. dioica individuals.We sequenced the normalized mRNA of roots, shoots, flower buds and flowers for each sex. Rawreads of the transcriptome assembly project for S. dioica male and female individual have been deposited in NCBI's Sequence Read Archive (SRA) databasewith the accession number SRP094611. The Trinity and Detonate program was used to de novo assembly 92,347 transcripts for male and 94,757 transcripts for female transcriptome. The assembled transcriptome sequences for S. dioica male and female individuals can be accessed at NCBI with the following accession numbers: GFCG00000000 (male); GFCH00000000 (female). The obtained transcriptomic data will be useful for further studies focusing on copper tolerance, comparative transcriptome analysis with other Silene species and sex chromosomes evolution.
DOI: 10.1016/j.gdata.2017.01.004
Fulltext: contact IEB authors
IEB authors: Roman Hobza