Next Article in Journal
Transcriptome Analysis of Male and Female Mature Gonads of Silver Sillago (Sillago sihama)
Next Article in Special Issue
A Magnesium Transport Protein Related to Mammalian SLC41 and Bacterial MgtE Contributes to Circadian Timekeeping in a Unicellular Green Alga
Previous Article in Journal
Reference Expression Profile of Three FBN1 Transcript Isoforms and Their Association with Clinical Variability in Marfan Syndrome
Previous Article in Special Issue
The LNK Gene Family: At the Crossroad between Light Signaling and the Circadian Clock
Article Menu
Issue 2 (February) cover image

Export Article

Open AccessArticle

Transcriptome Analysis of Diurnal Gene Expression in Chinese Cabbage

1
Department of Agricultural Biotechnology, National Academy of Agricultural Science, Rural Development Administration, 370, Nongsaengmyeong-ro, Wansan-gu, Jeonju-si 560-500, Korea
2
Department of Forest Bio-resources, National Institute of Forest Science, Suwon 16631, Korea
3
Department of Genetic Engineering and Crop Biotech Institute, Kyung Hee University, Yongin 17104, Korea
4
Department of Plant Science, College of Agriculture and Life Sciences, Seoul National University, San 56-1, Sillim-dong, Gwanak-gu, Seoul 151-744, Korea
5
Division of Applied Life Science (BK21Plus), Institute of Agricultural and Life Science (IALS), Gyeongsang National University, 501 Jinju-daero, Jinju 52828, Korea
*
Author to whom correspondence should be addressed.
These authors contribute equally to this work.
Genes 2019, 10(2), 130; https://doi.org/10.3390/genes10020130
Received: 16 December 2018 / Revised: 31 January 2019 / Accepted: 4 February 2019 / Published: 11 February 2019
(This article belongs to the Special Issue Genetic Regulation of Circadian Rhythm in Plants)
  |  
PDF [2825 KB, uploaded 23 February 2019]
  |  

Abstract

Plants have developed timing mechanisms that enable them to maintain synchrony with daily environmental events. These timing mechanisms, i.e., circadian clocks, include transcriptional/translational feedback loops that drive 24 h transcriptional rhythms, which underlie oscillations in protein abundance, thus mediating circadian rhythms of behavior, physiology, and metabolism. Circadian clock genes have been investigated in the diploid model plant Arabidopsis thaliana. Crop plants with polyploid genomes—such as Brassica species—have multiple copies of some clock-related genes. Over the last decade, numerous studies have been aimed at identifying and understanding the function of paralogous genes with conserved sequences, or those that diverged during evolution. Brassica rapa’s triplicate genomes retain sequence-level collinearity with Arabidopsis. In this study, we used RNA sequencing (RNAseq) to profile the diurnal transcriptome of Brassica rapa seedlings. We identified candidate paralogs of circadian clock-related genes and assessed their expression levels. These genes and their related traits that modulate the diurnal rhythm of gene expression contribute to the adaptation of crop cultivars. Our findings will contribute to the mechanistic study of circadian clock regulation inherent in polyploidy genome crops, which differ from those of model plants, and thus will be useful for future breeding studies using clock genes. View Full-Text
Keywords: Arabidopsis; Brassica rapa; circadian-related gene; polyploid genome; transcriptome Arabidopsis; Brassica rapa; circadian-related gene; polyploid genome; transcriptome
Figures

Figure 1

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

Share & Cite This Article

MDPI and ACS Style

Kim, J.A.; Shim, D.; Kumari, S.; Jung, H.-E.; Jung, K.-H.; Jeong, H.; Kim, W.-Y.; Lee, S.I.; Jeong, M.-J. Transcriptome Analysis of Diurnal Gene Expression in Chinese Cabbage. Genes 2019, 10, 130.

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]
Genes EISSN 2073-4425 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top