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Front. Plant Sci. | doi: 10.3389/fpls.2018.00244

Genome-wide identification and characterization of long non-coding RNA in wheat roots in response to Ca2+ channel blocker

 Keshi Ma1, 2, Wenshuo Shi1,  Mengyue Xu1, Jiaxi Liu1 and  Feixiong Zhang1*
  • 1College of Life Sciences, Capital Normal University, China
  • 2College of Life Science and Agronomy, Zhoukou Normal University, China

It remains unclear whether plant lncRNAs are responsive to Ca2+-channel blocking. When using the Ca2+-channel blocker, LaCl3, to treat germinated wheat seeds for 24 h, we found that both root length and mitosis were inhibited in the LaCl3-treated groups. The effect of the Ca2+-channel blocker was verified in three ways: a [Ca2+]cyt decrease detected using Fluo-3/AM staining, a decrease in the Ca content measured using inductively coupled plasma mass spectrometry, and an inhibition of Ca2+ influx detected using Non-invasive Micro-test Technology. Genome-wide high throughput RNA-seq and bioinformatical methods were used to identify lncRNAs, and found 177 differentially expressed lncRNAs that might be in responsive to Ca2+-channel blocking. Among these, 108 were up-regulated and 69 were down-regulated. The validity of identified lncRNAs data from RNA-seq was verified using qPCR. GO and KEGG analysis indicated that a number of lncRNAs might be involved in diverse biological processes upon Ca2+-channel blocking. Further GO analysis showed that 23 lncRNAs might play roles as transcription factor (TF); Moreover, eight lncRNAs might participate in cell cycle regulation, and their relative expressions were detected using qPCR. This study also provides diverse data on wheat lncRNAs that can deepen our understanding of the function and regulatory mechanism of Ca2+-channel blocking in plants.

Keywords: lncRNA, wheat, Ca2+-channel block, RNA-Seq, transcription factor, Cell Cycle

Received: 12 May 2017; Accepted: 12 Feb 2018.

Edited by:

Viswanathan Chinnusamy, Indian Agricultural Research Institute (IARI), India

Reviewed by:

Francisco Rubio, Centro de Edafología y Biología Aplicada del Segura (CSIC), Spain
Shaojun Xie, Purdue University, United States  

Copyright: © 2018 Ma, Shi, Xu, Liu and Zhang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Dr. Feixiong Zhang, Capital Normal University, College of Life Sciences, Beijing, 100048, BEIJING, China, fxzhang@cnu.edu.cn