biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsGregory FranklinIllumina NovaSeq 6000RNA-seq of coding RNAHypericum perforatumHypericum perforatumhttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15161The study was conducted to understand the defense responses of H. perforatum following co-cultivation with A. tumefaciens and A. rhizogenes through an integrative transcriptomics and metabolomics approach.biostudies-arrayexpressNucleic Acid Extraction - Total RNA was isolated from 100 mg of biomass using the Sigma Spectrum RNA extraction kit (Sigma-Aldrich, USA). RNA samples with an RNA integrity number (RIN) of at least seven were used for RNAseq analysis.Sample Treatment - A. tumefaciens or A. rhizogenes was added to H. perforatum cell suspension cultures in the exponential phase (three to five days after subculture).Sequencing - After size selection, the double-stranded cDNA was purified by PCR and 150 bp paired-read Illumina sequencing was performed (Novogene, Beijing, China).Sample Collection - After co-cultivation of Agrobacteria and A. tumefaciens, the cells were collected at different time points (0.5 h, 3 h, 12 h, 24 h). After the cells were vacuum filtered from the medium, they were immediately cryopreserved in liquid nitrogen and stored at -80 °C.Growth Protocol - Three biological replicates for the treatment and control were incubated in a growth chamber with a photoperiod of 16 hours of light and 8 hours of darkness at 25 °C, an irradiation of 80 µmol m-²s-¹ and a relative humidity of 70, and both the treated and control cultures were kept alive.Library Construction - Random hexamer primers were used to synthesise the cDNA after random fragmentation of the mRNA. DNA polymerase I, dNTPs, RNase H and a special second-strand synthesis buffer (Illumina) were used to generate the second strand.OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesMaria NucGregory FranklinPaweł KrajewskiRajendran K SelvakesavanfalseRNA-Seq analysis of cell suspension culture of Hypericum perforatumThe study was conducted to understand the defense responses of H. perforatum following co-cultivation with A. tumefaciens and A. rhizogenes through an integrative transcriptomics and metabolomics approach.2025-09-01T00:00:00Z2025-09-01T12:30:16.26Z2025-05-21T14:15:48.567ZE-MTAB-15161ERP172808EFO_0002944EFO_0004170EFO_0003789EFO_0005518EFO_0003738EFO_0004184EFO_0003969