A comprehensive analysis of the Korean fir (Abies koreana) genes expressed under heat stress using transcriptome analysis

Autor:	Myung Hwan Shin, Hwa Ja Hyun, Hans J. Bohnert, Yun Jeong Kim, Jung Eun Hwang, Hyeong Cheol Park
Jazyk:	angličtina
Rok vydání:	2018
Předmět:	0301 basic medicine Candidate gene Abies koreana De novo transcriptome assembly Sequence assembly lcsh:Medicine Computational biology Biology Article Transcriptome 03 medical and health sciences Gene Expression Regulation Plant Republic of Korea lcsh:Science Gene Plant Proteins Multidisciplinary Massive parallel sequencing Gene Expression Profiling lcsh:R High-Throughput Nucleotide Sequencing Molecular Sequence Annotation biology.organism_classification Heat stress 030104 developmental biology lcsh:Q Abies Heat-Shock Response
Zdroj:	Scientific Reports, Vol 8, Iss 1, Pp 1-11 (2018) Scientific Reports
ISSN:	2045-2322
DOI:	10.1038/s41598-018-28552-1
Popis:	Korean fir (Abies koreana), a rare species endemic to South Korea, is sensitive to climate change. Here, we used next-generation massively parallel sequencing technology and de novo transcriptome assembly to gain a comprehensive overview of the Korean fir transcriptome under heat stress. Sequencing control and heat-treated samples of Korean fir, we obtained more than 194,872,650 clean reads from each sample. After de novo assembly and quantitative assessment, 42,056 unigenes were generated with an average length of 908 bp. In total, 6,401 differentially expressed genes were detected, of which 2,958 were up-regulated and 3,443 down-regulated, between the heat-treated and control samples. A gene ontology analysis of these unigenes revealed heat-stress-related terms, such as “response to stimulus”. Further, in depth analysis revealed 204 transcription factors and 189 Hsps as differentially expressed. Finally, 12 regulated candidate genes associated with heat stress were examined using quantitative real-time PCR (qRT–PCR). In this study, we present the first comprehensive characterisation of Korean fir subjected to heat stress using transcriptome analysis. It provides an important resource for future studies of Korean fir with the objective of identifying heat stress tolerant lines.
Databáze:	OpenAIRE
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