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. Raw reads of the transcriptome assembly project for S. dioica male and female individual have been deposited in NCBI's Sequence Read Archive (SRA) database with 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.

Department of Plant Developmental Genetics Institute of Biophysics of the CAS v v i Kralovopolska 135 CZ 612 00 Brno Czech Republic

Department of Plant Developmental Genetics Institute of Biophysics of the CAS v v i Kralovopolska 135 CZ 612 00 Brno Czech Republic; Centre of Plant Structural and Functional Genomics Institute of Experimental Botany of the CAS v v i Slechtitelu 31 CZ 78371 Olomouc Holice Czech Republic

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Prát S. Die Erblichkeit der Resistenz gegen Kupfer. Ber. Deut. Bot. Ges. 1934;52:65–67.

Vyskot B., Hobza R. Gender in plants: sex chromosomes are emerging from the fog. Trends Genet. 2004;20:432–438. PubMed

Bernasconi G., Antonovics J., Biere A., Charlesworth D., Delph L.F., Filatov D. Silene as a model system in ecology and evolution. Heredity. 2009;103:5–14. PubMed

Schat H., Bookum W.M.T. Genetic control of copper tolerance in Silene vulgaris. Heredity. 1992;68:219–229.

Hobza R., Widmer A. Efficient molecular sexing in dioecious Silene latifolia and S. dioica and paternity analysis in F1 hybrids. Mol. Ecol. Resour. 2008;8:1274–1276. PubMed

Andrews S. FastQC a quality-control tool for high-throughput sequence data. http://www.bioinformatics.babraham.ac.uk/projects/fastq

Bolger A.M., Lohse M., Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30:2114–2120. PubMed PMC

Magoc T., Salzberg S.L. FLASH: fast length adjustment of short reads to improve genome assemblies. Bioinformatics. 2011;27:2957–2963. PubMed PMC

Grabherr M.G., Haas B.J., Yassour M., Levin J.Z., Thompson D.A., Amit I. Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat. Biotechnol. 2011;29:644–652. PubMed PMC

Li B., Fillmore N., Bai Y., Collins M., Thomson J.A., Stewart R. Evaluation of de novo transcriptome assemblies from RNA-Seq data. Genome Biol. 2014;15 PubMed PMC

Conesa A., Gotz S., Garcia-Gomez J.M., Terol J., Talon M., Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics. 2005;21:3674–3676. PubMed

Haas B.J., Papanicolaou A., Yassour M., Grabherr M., Blood P.D., Bowden J. De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis. Nat. Protoc. 2013;8:1494–1512. PubMed PMC

Transcriptome of barley under three different heavy metal stress reaction