De novo transcriptome sequencing and gene expression profiling of Magnolia wufengensis in response to cold stress

Magnolia wufengensis is a new species of Magnolia L. and has considerable ornamental and economic value due to its unique characteristics. However, because of its characteristic of poor low temperature resistance, M. wufengensis is hardly popularization and application in the north of China. Further...

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Bibliographic Details
Published in:BMC plant biology 2019-07, Vol.19 (1), p.321-321
Main Authors: Deng, Shixin, Ma, Jiang, Zhang, Lili, Chen, Faju, Sang, Ziyang, Jia, Zhongkui, Ma, Luyi
Format: Article
Language:English
Subjects:
Biochemistry
Cellular signal transduction
Cold stress
Criminal investigation
DNA binding proteins
Environmental aspects
Gene expression
Gene regulation
Genes
Genetic aspects
Genetic regulation
Genomes
Genomics
Hormones
Magnolia wufengensis
Magnolias
Photosynthesis
Physiological aspects
Plant biochemistry
Plant hardiness
RNA
RNA sequencing
RNA-Seq
Transcriptome
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Summary:Magnolia wufengensis is a new species of Magnolia L. and has considerable ornamental and economic value due to its unique characteristics. However, because of its characteristic of poor low temperature resistance, M. wufengensis is hardly popularization and application in the north of China. Furthermore, the mechanisms of gene regulation and signaling pathways involved in the cold-stress response remained unclear in this species. In order to solve the above-mentioned problems, we performed de novo transcriptome assembly and compared the gene expression under the natural (25 °C) and cold (4 °C) conditions for M. wufengensis seedlings. More than 46 million high-quality clean reads were produced from six samples (RNA was extracted from the leaves) and were used for performing de novo transcriptome assembly. A total of 59,764 non-redundant unigenes with an average length of 899 bp (N50 = 1,110) were generated. Among these unigenes, 31,038 unigenes exhibited significant sequence similarity to known genes, as determined by BLASTx searches (E-value ≤1.0E-05) against the Nr, SwissProt, String, GO, KEGG, and Cluster of COG databases. Based on a comparative transcriptome analysis, 3,910 unigenes were significantly differentially expressed (false discovery rate [FDR] 
ISSN:1471-2229
1471-2229
DOI:10.1186/s12870-019-1933-5