De novo transcriptome analysis of Viola × wittrockiana exposed to high temperature stress

Xiaohua Du, Xiaopei Zhu, Yaping Yang, Yanli Wang, Paul Arens, Huichao Liu*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

Abstract

Around the world, pansies are one of the most popular garden flowers, but they are generally sensitive to high temperatures, and this limits the practicality of planting them during the warmest days of the year. However, a few pansy germplasms with improved heat tolerance have been discovered or bred, but the mechanisms of their heat resistance are not understood. In this study, we investigated the transcript profiles of a heat-tolerant pansy inbred line, DFM16, in response to high temperatures using RNAseq. Approximately 55.48 Gb of nucleotide data were obtained and assembled into 167,576 unigenes with an average length of 959 bp, of which, 5,708 genes were found to be differentially expressed after heat treatments. Real-time qPCR was performed to validate the expression profiles of the selected genes. Nine metabolic pathways were found to be significantly enriched, in the analysis of the differentially expressed genes. Several potentially interesting genes that encoded putative transcription regulators or key components involving heat shock protein (HSP), heat shock transcription factors (HSF), and antioxidants biosynthesis, were identified. These genes were highlighted to indicate their significance in response to heat stress and will be used as candidate genes to improve pansy heat-tolerance in the future.

Original languageEnglish
Article numbere0222344
JournalPLoS ONE
Volume14
Issue number9
DOIs
Publication statusPublished - 24 Sep 2019

Fingerprint

Viola wittrockiana
Viola
Gene Expression Profiling
transcriptomics
Genes
Temperature
heat tolerance
Hot Temperature
temperature
genes
heat stress
transcription factors
Heat-Shock Response
Heat-Shock Proteins
unigenes
Metabolic Networks and Pathways
Transcriptome
Biosynthesis
Transcription
heat shock proteins

Cite this

Du, Xiaohua ; Zhu, Xiaopei ; Yang, Yaping ; Wang, Yanli ; Arens, Paul ; Liu, Huichao. / De novo transcriptome analysis of Viola × wittrockiana exposed to high temperature stress. In: PLoS ONE. 2019 ; Vol. 14, No. 9.
@article{f225c06285c444c98159ffe490a33d97,
title = "De novo transcriptome analysis of Viola × wittrockiana exposed to high temperature stress",
abstract = "Around the world, pansies are one of the most popular garden flowers, but they are generally sensitive to high temperatures, and this limits the practicality of planting them during the warmest days of the year. However, a few pansy germplasms with improved heat tolerance have been discovered or bred, but the mechanisms of their heat resistance are not understood. In this study, we investigated the transcript profiles of a heat-tolerant pansy inbred line, DFM16, in response to high temperatures using RNAseq. Approximately 55.48 Gb of nucleotide data were obtained and assembled into 167,576 unigenes with an average length of 959 bp, of which, 5,708 genes were found to be differentially expressed after heat treatments. Real-time qPCR was performed to validate the expression profiles of the selected genes. Nine metabolic pathways were found to be significantly enriched, in the analysis of the differentially expressed genes. Several potentially interesting genes that encoded putative transcription regulators or key components involving heat shock protein (HSP), heat shock transcription factors (HSF), and antioxidants biosynthesis, were identified. These genes were highlighted to indicate their significance in response to heat stress and will be used as candidate genes to improve pansy heat-tolerance in the future.",
author = "Xiaohua Du and Xiaopei Zhu and Yaping Yang and Yanli Wang and Paul Arens and Huichao Liu",
year = "2019",
month = "9",
day = "24",
doi = "10.1371/journal.pone.0222344",
language = "English",
volume = "14",
journal = "PLoS ONE",
issn = "1932-6203",
publisher = "Public Library of Science",
number = "9",

}

De novo transcriptome analysis of Viola × wittrockiana exposed to high temperature stress. / Du, Xiaohua; Zhu, Xiaopei; Yang, Yaping; Wang, Yanli; Arens, Paul; Liu, Huichao.

In: PLoS ONE, Vol. 14, No. 9, e0222344, 24.09.2019.

Research output: Contribution to journalArticleAcademicpeer-review

TY - JOUR

T1 - De novo transcriptome analysis of Viola × wittrockiana exposed to high temperature stress

AU - Du, Xiaohua

AU - Zhu, Xiaopei

AU - Yang, Yaping

AU - Wang, Yanli

AU - Arens, Paul

AU - Liu, Huichao

PY - 2019/9/24

Y1 - 2019/9/24

N2 - Around the world, pansies are one of the most popular garden flowers, but they are generally sensitive to high temperatures, and this limits the practicality of planting them during the warmest days of the year. However, a few pansy germplasms with improved heat tolerance have been discovered or bred, but the mechanisms of their heat resistance are not understood. In this study, we investigated the transcript profiles of a heat-tolerant pansy inbred line, DFM16, in response to high temperatures using RNAseq. Approximately 55.48 Gb of nucleotide data were obtained and assembled into 167,576 unigenes with an average length of 959 bp, of which, 5,708 genes were found to be differentially expressed after heat treatments. Real-time qPCR was performed to validate the expression profiles of the selected genes. Nine metabolic pathways were found to be significantly enriched, in the analysis of the differentially expressed genes. Several potentially interesting genes that encoded putative transcription regulators or key components involving heat shock protein (HSP), heat shock transcription factors (HSF), and antioxidants biosynthesis, were identified. These genes were highlighted to indicate their significance in response to heat stress and will be used as candidate genes to improve pansy heat-tolerance in the future.

AB - Around the world, pansies are one of the most popular garden flowers, but they are generally sensitive to high temperatures, and this limits the practicality of planting them during the warmest days of the year. However, a few pansy germplasms with improved heat tolerance have been discovered or bred, but the mechanisms of their heat resistance are not understood. In this study, we investigated the transcript profiles of a heat-tolerant pansy inbred line, DFM16, in response to high temperatures using RNAseq. Approximately 55.48 Gb of nucleotide data were obtained and assembled into 167,576 unigenes with an average length of 959 bp, of which, 5,708 genes were found to be differentially expressed after heat treatments. Real-time qPCR was performed to validate the expression profiles of the selected genes. Nine metabolic pathways were found to be significantly enriched, in the analysis of the differentially expressed genes. Several potentially interesting genes that encoded putative transcription regulators or key components involving heat shock protein (HSP), heat shock transcription factors (HSF), and antioxidants biosynthesis, were identified. These genes were highlighted to indicate their significance in response to heat stress and will be used as candidate genes to improve pansy heat-tolerance in the future.

U2 - 10.1371/journal.pone.0222344

DO - 10.1371/journal.pone.0222344

M3 - Article

VL - 14

JO - PLoS ONE

JF - PLoS ONE

SN - 1932-6203

IS - 9

M1 - e0222344

ER -