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Identification of novel miRNAs and their target genes in Eucalyptus grandis
Authors:Zheng Lin  Qingfen Li  Qi Yin  Jinyan Wang  Baolong Zhang  Siming Gan  Ai-Min Wu
Affiliation:1.State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources,South China Agricultural University,Guangzhou,China;2.Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures,South China Agricultural University,Guangzhou,China;3.Provincial Key Laboratory of Agrobiology,Jiangsu Academy of Agricultural Sciences,Nanjing,China;4.Research Institute of Tropical Forestry,Chinese Academy of Forestry,Guangzhou,China
Abstract:Despite Eucalyptus grandis being the most widely planted hardwood tree globally, along with the availability of a sequenced genome and easily accessible functional genetic tools, the quantities and roles of miRNA in its developmental processes remains largely unknown. In this study, we constructed small RNA libraries by high-throughput sequencing from Eucalyptus grandis samples, and 386 novel miRNAs were identified by miRDeep2. We found 179 novel miRNAs, 41 miRNA families, and 456 target genes in leaf samples, and 257 novel miRNAs, 61 miRNA families, and 483 target genes in stem samples. The function of the MIR396 family of miRNAs in Eucalyptus grandis was found to be mainly associated with the process of cell growth. By annotation analysis of miRNA targets, we found that some target genes, such as GRF, expansin-A15, and RPS2, had a close correlation in stem. Finally, the three randomly selected members of the MIR396 family were confirmed to express in Eucalyptus grandis by qRT-PCR, indicating that our reported miRNAs were existed. The identification of miRNAs and their target genes will lead to a greater understanding of the role of miRNAs in the physiology, growth, and development of Eucalyptus grandis trees.
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