Identification of GRAS gene family in Rheum palmatum based on full-length transcriptome sequencing
Objective The members of GRAS gene family in Rheum palmatum were extracted based on full-length transcriptome sequencing,and their expression in leaves,roots and rhizomas and under methyl jasmonate(MeJA)treatment were analyzed.Methods The phylogeny,conserved domain,protein physicochemical properties and subcellular localization of GRAS members of R.palmatum were analyzed by bioinformatics.RNA sequencing(RNA-seq)analysis was performed on the tissue expression patterns of RpGRASs genes based on transcriptome data,and real-time quantitative reverse transcription PCR(RT-qPCR)was used to detect the expression patterns of the three selected RpGRASs genes under MeJA treatment.Results A total of 39 RpGRASs members were identified from the full-length transcriptome data of R.palmatum.RpGRASs proteins were mainly unstable hydrophilic proteins located in the nucleus,chloroplast and cytoplasm.The secondary structure of each protein was mainly random coil and α helix.The family was divided into six subfamilies,namely PAT1,DELLA,HAM,SHR,SCR and SCL4/7.The C-terminal of GRAS protein contained typical LHRI,VHIID,LHRII,PFYRE and SAW motifs.The expression of RpGRASs gene was tissue-specific,and RpGRAS17,RpGRAS18 and RpGRAS20 which were highly expressed in the roots and rhizomes of medicinal parts were significantly induced by MeJA.Conclusion The systematic identification and gene expression analyses of GRAS transcription factor family lay a foundation for further gene function analyses of GRASs in R.palmatum.
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