Next Article in Journal
Expression of Autophagy-Related Proteins in Different Types of Thyroid Cancer
Previous Article in Journal
Tentative Characterization of Polyphenolic Compounds in the Male Flowers of Phoenix dactylifera by Liquid Chromatography Coupled with Mass Spectrometry and DFT
Article Menu
Issue 3 (March) cover image

Export Article

Open AccessArticle
Int. J. Mol. Sci. 2017, 18(3), 475; doi:10.3390/ijms18030475

Response of Gene Expression and Alternative Splicing to Distinct Growth Environments in Tomato

1
University of Chinese Academy of Sciences, 19A Yuquan Rd., Beijing 100049, China
2
National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences (CAS), 300 Fenglin Rd., Shanghai 200032, China
*
Author to whom correspondence should be addressed.
Academic Editor: Lam-Son Phan Tran
Received: 30 December 2016 / Revised: 7 February 2017 / Accepted: 13 February 2017 / Published: 2 March 2017
(This article belongs to the Section Molecular Botany)
View Full-Text   |   Download PDF [6210 KB, uploaded 2 March 2017]   |  

Abstract

Phenotypic plasticity is the phenomenon that one particular genotype produces different phenotypes under different environmental conditions, but its underlying molecular and genetic mechanisms are poorly understood. Plastic traits may be under the control of genes whose expression is modulated by environmental cues. In this study, we investigated phenotypic plasticity in tomato (Solanum lycopersicum) and its ancestral species S. pimpinellifolium by comparing the global gene expression of young seedlings grown under two distinct growth conditions. Our results show that more than 7000 genes exhibited differential expression in response to environmental changes from phytotron to a plastic greenhouse, and 98 environmentally sensitive genes displayed the same patterns of expression response across the two tomato species. We also found that growth conditions had a remarkable impact on transcriptome complexity, attributable to alternative splicing (AS), in which 665 splice variants showed differential expression in response to the environmental changes. Moreover, more splice variants and AS events per gene were detected in plastic greenhouse-grown seedlings than their phytotron counterparts, and these seedlings also had higher percentages of intron retention events. The identification of the conserved environmentally-sensitive genes and the splice variants in this study will be useful for further analysis of gene regulation of environmental response in tomato and other crops. View Full-Text
Keywords: alternative splicing; RNA sequencing; transcriptome; phenotypic plasticity; tomato alternative splicing; RNA sequencing; transcriptome; phenotypic plasticity; tomato
Figures

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

Supplementary material

Scifeed alert for new publications

Never miss any articles matching your research from any publisher
  • Get alerts for new papers matching your research
  • Find out the new papers from selected authors
  • Updated daily for 49'000+ journals and 6000+ publishers
  • Define your Scifeed now

SciFeed Share & Cite This Article

MDPI and ACS Style

Wang, G.; Weng, L.; Li, M.; Xiao, H. Response of Gene Expression and Alternative Splicing to Distinct Growth Environments in Tomato. Int. J. Mol. Sci. 2017, 18, 475.

Show more citation formats Show less citations formats

Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Int. J. Mol. Sci. EISSN 1422-0067 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top