Quantitative proteomic dataset of the moss Physcomitrium patens PSEP3 KO and OE mutant lines
PSEP3 is a 57-aa lncRNA encoded peptide found in moss Physcomitrium patens. PSEP3 contains Low sequence Complexity Regions (LCRs) and is enriched with proline. It was shown to be translated in protonemata and gametophores, and changes in its expression affect protonema growth (Fesenko et al., 2019). To study the physiological effects of PSEP3, we conducted a quantitative proteomic analysis of PSEP3 knockout and overexpressing mutant lines. The iTRAQ-based proteomic experiment was performed in 3 biological replicates for each line, received data were analyzed with PEAKS software. This dataset can be used to compare proteomes of wild type Physcomitrium patens with KO and OE PSEP3 mutant lines. PSEP3 affects the quantity of photosynthetic proteins, catalase, dynamin-related protein 1C, metacaspase-4-related protein and others. In this dataset, there are raw LC-MS/MS results and PEAKS quantification tables. More analysis of PSEP3 effects on plants can be obtained in the article in Nucleic Acid Research (Fesenko et al., 2021).
Steps to reproduce
Protonemata of WT, PSEP3 KO and PSEP3 OE mutant lines were grown in 200 ml liquid BCD medium supplemented with 5 mM ammonium tartrate (BCDAT) during a 16-h photoperiod at 25C. After 7 days, protonemata were collected for analysis. The experiment was performed in three biological replicates. Raw data were acquired with mass spectrometry using Q Exactive HF benchtop Orbitrap mass spectrometer (Thermo Fisher Scientific) and iTRAQ kit, analysis was performed using PEAKS Software with protein identification based on a Phytozome protein database.