Plant regeneration in leaf culture of Centaurium erythraea Rafn. Part 3: de novo transcriptome assembly and validation of housekeeping genes for studies of in vitro morphogenesis
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Six centaury transcriptomes (embryogenic calli, globular somatic embryos, cotyledonary somatic embryos, adventitious buds, leaves and roots of <em>in vitro</em> grown plants) were sequenced and <em>de novo</em> assembled using Trinity . CE_Assembly.tar.gz - Centaury referent transcriptome comprises of 160.839 Trinity transcripts grouped in 105.726 Trinity genes. CE_Assembly_fpkm.tar.gz - fpkm normalized read counts of the assembled transcripts in the six sequenced centaury tissues. nt.db_CE_assembly.tar.gz - annotation of assembled transcripts by mapping them against NCBI nucleotide (NT) database using BLASTn . The obtained results were filtered with E-value E ≤ 10<sup>-3</sup>. swissprot.db_CE_assembly.tar.gz - annotation of assembled transcripts by mapping them against NCBI nucleotide (swissprot) database using BLASTx . The obtained results were filtered with E-value E ≤ 10<sup>-3</sup>. pfam30.db_CE_assembly.tar.gz - annotation of assembled transcripts by mapping them against Pfam30 domain database using hmmer3. The obtained results were filtered with independent E-value E ≤ 10<sup>-3</sup>.
