Project description:We analyzed the chromatin accessibility and nucleosome positioning by ATAC-seq of both null and transgene-expressing strains of Komagataella phaffii (Pichia pastoris) under different growth conditions. These data enabled identification of the features that determine performance of various integration sites for transgene expression. Understanding chromatin accessibility and nucleosome positioning can provide further clarity into gene regulation and expression broadly in this organism.
Project description:Pichia pastoris GS115 was cultured in YPD medium and protein were extracted and separated on SDS-PAGE followed by in-gel trypsin digestion. Protein were also digested in-solution using trypsin and fractionated using SCX and bRPLC. A total of 101 peptide fractions were analyzed on LTQ-Orbitrap Velos mass spectrometer. The raw data was searched using Mascot, Sequest and MS Amanda search algorithms against P. pastorisGS115 NCBI RefSeq database through Proteome Discoverer software suite.
