Differential alternative splicing genes in response to boron deficiency in Brassica napus

Gu, J., Li, W., Wang, S., Zhang, X., Coules, A., Ding, G., Xu, F., Ren, J., Lu, C. ORCID: 0000-0002-0064-4725 and Shi, L., 2019. Differential alternative splicing genes in response to boron deficiency in Brassica napus. Genes, 10 (3): 224. ISSN 2073-4425

[img]
Preview
Text
13603_Lu.pdf - Published version

Download (5MB) | Preview

Abstract

Alternative splicing (AS) can increase transcriptome diversity, protein diversity and protein yield, and is an important mechanism to regulate plant responses to stress. Oilseed rape (Brassica napus L.), one of the main oil crops in China, shows higher sensitivity to boron (B) deficiency than other species. Here, we demonstrated AS changes that largely increased the diversity of the mRNA expressed in response to B deficiency in B. napus. Each gene had two or more transcripts on average. A total of 33.3% genes in both Qingyou10 (QY10, B-efficient cultivar) and Westar10 (W10, B-inefficient cultivar) showed AS in both B conditions. The types of AS events were mainly intron retention, 3′ alternative splice site, 5′ alternative splice site and exon skipping. The tolerance ability of QY10 was higher than that of W10, possibly because there were far more differential alternative splicing (DAS) genes identified in QY10 at low B conditions than in W10. The number of genes with both DAS and differentially expressed (DE) was far lower than that of the genes that were either with DAS or DE in QY10 and W10, suggesting that the DAS and DE genes were independent. Four Serine/Arginine-rich (SR) splicing factors, BnaC06g14780D, BnaA01g14750D, BnaA06g15930D and BnaC01g41640D, underwent differentially alternative splicing in both cultivars. There existed gene–gene interactions between BnaC06g14780D and the genes associated with the function of B in oilseed rape at low B supply. This suggests that oilseed rape could regulate the alterative pre-mRNA splicing of SR protein related genes to increase the plant tolerance to B deficiency.

Item Type: Journal article
Publication Title: Genes
Creators: Gu, J., Li, W., Wang, S., Zhang, X., Coules, A., Ding, G., Xu, F., Ren, J., Lu, C. and Shi, L.
Publisher: MDPI
Date: 18 March 2019
Volume: 10
Number: 3
ISSN: 2073-4425
Identifiers:
NumberType
10.3390/genes10030224DOI
Divisions: Schools > School of Animal, Rural and Environmental Sciences
Depositing User: Jonathan Gallacher
Date Added: 20 Mar 2019 08:20
Last Modified: 20 Mar 2019 08:20
URI: http://irep.ntu.ac.uk/id/eprint/36087

Actions (login required)

Edit View Edit View

Views

Views per month over past year

Downloads

Downloads per month over past year