Identifying Differentially Expressed Genes Associated with Tolerance against Low Temperature Stress in Brassica napus through Transcriptome Analysis

Abstract

To cite this paper: Xian, M., T. Luo, M.N. Khan, L. Hu and Z. Xu, 2017. Identifying differentially expressed genes associated with tolerance against low temperature stress in Brassica napus through transcriptome analysis. AbstractUnder direct-seeding method of sowing, seedling survival is adversely affected due to low temperature. The purpose of this study was to understand the morphological, physiological and molecular response of rapeseed resistance to low temperature stress at seedling establishment. Two varieties Qinyou No.7 (resistant biotype) and Fengyou 730 (sensitive biotype) were used for morphological and physiological experiments under low temperature stress and the resistant variety was used for transcriptome analysis based on the Illumina HiSeq 2000 platform. Results showed resistant variety initiated osmotic regulation system firstly and then triggered the antioxidant enzyme system when exposed to low temperature stress for long duration. The MDA content firstly tended to increase and then decreased in resistant variety, but it continued to increase in sensitive variety. Through transcriptome analysis of Qinyou No. 7 under low temperature for 0 h, 24 h, 48 h and 96 h, 2254 differentially expressed unigenes clustering in 7 expression patterns were participated in low temperature stress. Proteinserine/threonine kinases, myo-inositol-1-phosphate synthases and calmodulins, as the members of ABA and IP3/Ca2+ signal transduction pathway, played an important role in the low temperature stress. Different expressed genes dataset provides useful candidate genes for functional analysis of rapeseed resistance to low temperature.

Associating transcriptional regulation for rapid germination of rapeseed (Brassica napus L.) under low temperature stress through weighted gene co-expression network analysis

“…For fast germination speed genotype, a part of specific upregulated genes under low temperature enriched in the phosphatidylinositol signaling system. Compared with the slow germination speed genotype, genes encoding serine/threonine-protein kinase, casein kinase, and calmodulin were also upregulated in the fast germinating genotypes at low temperature, supporting that IP3/Ca2+ signal transduction pathway played an important role in abiotic stress 24,61 . The transcription factor families, including bZIP, bHLH, AP2/ERF, MYB, NAC, GRF, zinc-finger, WRKY, HSF, and Trihelix, were upregulated to response to low temperature stress and participated in the transcriptional regulation in fast germination speed genotypes.…”

“…For rapeseed, improved germination rates under low temperatures have been associated with high isocitrate lyase activities and rapid mobilization of total lipid and protein reserves 22,23 . With the application of next-generation sequencing (NGS) technology, several regulatory networks and related candidate genes for low-temperature-response have been elucidated, including hormonal responses to abscisic acid (ABA) and gibberellins (GA) 24–27 , ROS signal transduction pathway 28 , and APETALA2/Ethylene Responsive Factor (AP2/ERF) transcription factors 29,30 . Candidate genes controlling seed germination and vigor in Brassica napus L. have been identified by genome-wide association mapping 31 ; however, studies on gene regulatory networks related to fast germination under low temperature stress remain rare 32–34 .…”

Tibet The Seed Germination Characteristics Under Low Temperature and Spring Sowing Study of 8 Rapeseed Varieties

“…Germination quickly under low temperature is a critical index for plant later growth of rapeseed. Seed germination traits were the comprehensive performance of multiple indicators between gene and environmental interaction (Chinnusamy et al, 2010;Xian et al, 2017). It is important for the evaluation of low-temperature tolerance and identification of variety to establish the low-temperature tolerance evaluating indicator system.…”

Characterization of cold stress responses in different rapeseed ecotypes based on metabolomics and transcriptomics analyses

“…Until now, many valuable studies have been performed to examine the morphology, physiology and molecular biology of cold resistance (Burbulis et al, 2010;Chen et al, 2011), but few studies have addressed the cold resistance regulatory network mechanisms at the transcriptome and metabolome levels in rapeseed. ABA and IP3/Ca 2+ signal transduction pathways have been identified as key actors in response to low temperature in rapeseed (Xian et al, 2017). To our knowledge, the elucidation of candidate genes or the metabolite response to low temperature in rapeseed using metabolomics and transcriptomics analysis is still very lacking.…”