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Genome‐wide screening of long non‐coding RNAs involved in rubber biosynthesis in Eucommia ulmoides
Author(s) -
Liu Huimin,
Lu Yan,
Wang Juan,
Hu Jingjing,
Wuyun Tana
Publication year - 2018
Publication title -
journal of integrative plant biology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.734
H-Index - 83
eISSN - 1744-7909
pISSN - 1672-9072
DOI - 10.1111/jipb.12693
Subject(s) - gene , eucommia ulmoides , natural rubber , biology , computational biology , rna , biosynthesis , genome , genetics , chemistry , medicine , alternative medicine , organic chemistry , pathology , traditional chinese medicine
Increasing evidence indicates that long non‐coding RNAs (lncRNAs) play pivotal roles in regulatory networks controlling plant and animal gene expression. However, lncRNA roles in regulating rubber biosynthesis in Eucommia ulmoides , an emerging source of natural rubber (Eu‐rubber), are currently unknown. Here, we report on RNA deep‐sequencing of E. ulmoides fruits at two developmental stages. Based on application of a stringent pipeline, 29,103 lncRNAs and 9,048 transcripts of uncertain coding potential (TUCPs) were identified. Two differentially expressed (DE) TUCPs appear to simultaneously regulate 12 protein‐coding genes involved in Eu ‐ rubber biosynthesis (GIEBs), as well as 95 DE genes. Functional categorization of these 95 DE genes indicated their involvement in subcellular microstructures and cellular processes, such as cell wall, cell division, and growth. These DE genes may participate in the differentiation and development of laticifers, where Eu‐rubber is synthesized. A model is proposed in which “commanders” (DE TUCPs) direct the “builders” (DE genes) to construct a “storehouse” of materials needed for Eu‐rubber synthesis, and the “workers” (GIEBs) to synthesize Eu‐rubber. These findings provide insights into both cis ‐ and trans ‐polyisoprene biosynthesis in plants, laying the foundation for additional studies of this crucial process.