Epigenetics and Proteomics Studies of Drought Tolerance in Hall’s Grass

Shohana Huq, Tennessee State University


Plants are susceptible to different environmental factors (abiotic and biotic) which limit their growth and reproduction. To adapt the condition, they employ various sophisticated ways to adverse environmental situations without distressing their survival of proper growth, reproductive success and overall development. Abiotic environmental factors can distract the total proteome composition of a plant. To understand this, a complex network of regulating gene expression at molecular level (transcriptional and post-transcriptional) is required, including epigenetic framework. PRMT1 belongs to the family of methyltransferases (Arginine specific) which leads to the formation of an epigenetic transcriptional memory. ChIP-Seq was done using the Next-Gen sequencing platform. Both HiSeq and MiSeq yielded more than 44 million raw reads per samples. This represents about 93% of the mapping ratio for the genome of Hall’s grass (Panicum hallii, panhal2). This information was tracked using a browser that provided all identified peaks. Roughly 1300 to 34746 peaks were observed in the annotated gene regions. Some regions were enriched above the background. Fourteen common and 91 upregulated broad and narrow peaks were identified from the ChIP which sequenced the control and drought treated samples. After epigenetic modifications in Panicum hallii, some locations of the genome were enriched with high protein fold enrichment values. This confirmed that the presense of DNA-protein binding site occurred through methylase enzymes. Mass Spectrometry Analysis from leaf nuclear proteomic study identified 4480 proteins from Panicum hallii after drought stress. Among the identified proteomes, 2983 were proteins of 2 or more peptides and 96 (2.14%) proteins were significantly changed proteins found from the quantitative analysis. Several identified nuclear proteins were found to be increased with drought and thought to give protection after stress condition. Proteomic associated molecular studies to drought condition opens some important candidate genes or proteins to be used in understanding drought tolerance mechanism. Identification of 227 sequence specific motifs and Proteomics analysis will facilitate the molecular study of P. hallii. This information produced by ChIP-seq is expected to produce a framework for association illustrating the transcriptional control of gene expression in Panicum hallii. Data are available at NCBI SRA database under the accession PRJNA553526.

Subject Area


Recommended Citation

Shohana Huq, "Epigenetics and Proteomics Studies of Drought Tolerance in Hall’s Grass" (2019). ETD Collection for Tennessee State University. Paper AAI27542751.