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The rice calcium-dependent protein kinase 13 (CDPK13) and calreticulin interacting protein 1 (CRTintP1) have previously been reported to be related to calreticulin, which is involved in cold stress response in rice.
A predominant group of motifs in the OsEULD1B promoter are associated with transcription factors belonging to the bZIP family, these are known as stress inducible transcription factors (Banerjee and Roychoudhury 2017) involved in drought, osmotic, salt stress and some of them also in cold stress (Liu et al. 2014; Lu et al. 2009).
We also applied the three methods to a real biological dataset [9] to identify genes in cold stress regulatory pathways.
The discrepancy between heat and cold stress resistance, with the former not being affected by any type of food stress, suggests that the mechanisms involved in heat resistance (e.g. the heat shock response [14]) might be more costly than those involved in cold stress resistance [65], [68] [69].
A small set of genes are involved in cold stress.
AtMYB15 is also involved in cold stress tolerance [ 45 ].
To investigate the influence of miRNAs on the global expression of protein-coding genes in cold stress, we adopted four different approaches.
The detection of the cold-induced expression for these miRNAs in Brachypodium indicates that they are also involved in cold stress response in monocotyledonous plants.
By applying screening thresholds of 3 fold changes and FDR ≤0.01, a total of 5,800 DEGs were detected to involve in cold stress.
Of the 2800 UniGene sequences, 398 displayed significant homology (BlastX E values ≤ 10-10) to genes previously reported to be involved in cold stress related processes.
All these results indicate that conserved transcription regulation and signal transduction pathways are involved in cold stress response in both genotypes.
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