title: Insight into small RNA abundance and expression in high- and low-temperature stress response using deep sequencing in Arabidopsis.
abstract: Small RNA profiling and assessing its dependence on changing environmental factors have expanded our understanding of the transcriptional and post-transcriptional regulation of plant stress responses. Insufficient data have been documented earlier to depict the profiling of small RNA classes in temperature-associated stress which has a wide implication for climate change biology. In the present study, we report a comparative assessment of the genome-wide profiling of small RNAs in Arabidopsis thaliana using two conditional responses, induced by high- and low-temperature. Genome-wide profiling of small RNAs revealed an abundance of 21 nt small RNAs at low temperature, while high temperature showed an abundance of 21 nt and 24 nt small RNAs. The two temperature treatments altered the expression of a specific subset of mature miRNAs and displayed differential expression of a number of miRNA isoforms (isomiRs). Comparative analysis demonstrated that a large number of protein-coding genes can give rise to differentially expressed small RNAs following temperature shifts. Low temperature caused accumulation of small RNAs, corresponding to the sense strand of a number of cold-responsive genes. In contrast, high temperature stimulated the production of small RNAs of both polarities from genes encoding functionally diverse proteins.
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria. Electronic address: vebaev@plantgene.eu.
authors.forename: Vesselin
authors.initials: V
authors.lastname: Baev
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria.
authors.forename: Ivan
authors.initials: I
authors.lastname: Milev
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria.
authors.forename: Mladen
authors.initials: M
authors.lastname: Naydenov
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria.
authors.forename: Tihomir
authors.initials: T
authors.lastname: Vachev
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria.
authors.forename: Elena
authors.initials: E
authors.lastname: Apostolova
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria.
authors.forename: Nikolay
authors.initials: N
authors.lastname: Mehterov
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria.
authors.forename: Mariyana
authors.initials: M
authors.lastname: Gozmanva
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria.
authors.forename: Georgi
authors.initials: G
authors.lastname: Minkov
authors.affiliation: Department of Biodiversity and Molecular Ecology, Fondazione Edmund Mach, IASMA, San Michele 38010, Italy.
authors.forename: Gaurav
authors.initials: G
authors.lastname: Sablok
authors.affiliation: Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria. Electronic address: galina.yahubyan@gmail.com.
authors.forename: Galina
authors.initials: G
authors.lastname: Yahubyan
mesh_terms: D017360:Arabidopsis / Q000235:genetics*; D018506:Gene Expression Regulation, Plant / Q000235:genetics / Q000502:physiology; D059014:High-Throughput Nucleotide Sequencing; D035683:MicroRNAs / Q000235:genetics; D018749:RNA, Plant / Q000235:genetics*; D013696:Temperature
chemical_list: D035683:MicroRNAs; D018749:RNA, Plant
keywords: Arabidopsis; NGS; Small RNAs; Temperature stress; miRNAs