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Trees

, Volume 33, Issue 6, pp 1639–1656 | Cite as

De novo transcriptome sequencing and identification of genes related to salt and PEG stress in Tetraena mongolica Maxim

  • Ningmei Chen
  • Jinchao Feng
  • Buerbatu Song
  • Shuai Tang
  • Junqing He
  • Yijun Zhou
  • Sha Shi
  • Xiaojing XuEmail author
Original Article
  • 48 Downloads
Part of the following topical collections:
  1. Ecological Genetics

Abstract

Key message

The first transcriptome analyses of Tetraena mongolica provided 224,618 Unigenes and identified the genes that were differentially expressed under salt and drought conditions, giving some insights into the unique adaptive capacity of this relic plant.

Abstract

Tetraena mongolica Maxim, the only member of the Tetraena genus in the Zygophyllaceae, is endemic to the northwest of China. As one of the relic shrubs of the Paleo-Mediterranean flora, T. mongolica plays a key role in preserving the local ecological environment. To investigate its good adaptability in desert, we studied the transcriptome of T. mongolica under NaCl and PEG6000 stresses. Three libraries were constructed from a mixture of seedlings and mature plants of T. mongolica, and the de novo transcriptome was sequenced using an Illumina HiSeq 4000. Approximately 218.15 million clean reads were assembled de novo into 383,612 transcripts, and 116,027 All-Unigenes were identified. By aligning All-Unigene sequences against the NR database, we found that most of the All-Unigenes had very low matches with the sequences from other plants. A total of 21,112 SSRs and 6 types of SNP variants were identified. The RNA-Seq data revealed 60 transcription factor (TF) families with 3163 genes in total. Six libraries were constructed from the separate control or stressed seedlings, and the transcriptome was sequenced using a BGISEQ-500 platform. There are 1105 and 1383 differentially expressed genes (DEGs) with 42 and 54 TFs under NaCl and PEG6000 treatment, respectively. The genes that were putatively involved in salt and osmotic stresses were searched and analyzed. Quantitative reverse transcription PCR (qRT-PCR) showed that DEG expression profiles were consistent with those from RNA-seq (RNA sequencing). Overall, this study provides new insights into the molecular mechanisms that control salt and drought stress responses in T. mongolica.

Keywords

Tetraena mongolica Transcriptome sequencing Unigenes Differentially expressed gene Stress response 

Abbreviations

BLAST

Basic local alignment search tool

DEGs

Differentially expressed genes

GO

Gene ontology

KEGG

Kyoto encyclopedia of genes and genomes

KOG

Eukaryotic Orthologous Groups

Nr/Nt

Non-redundant database and nucleotide collection

PEG

Polyethylene glycol

QC

Quality control

qRT-PCR

Quantitative reverse transcription PCR

RNA-seq

RNA sequencing

TFs

Transcription factors

Notes

Acknowledgements

This research was supported by the National Natural Science Foundation of China (31470392, 31570407), the First Class University and Discipline Construction Project of Minzu University of China (Yldxxk201819).

Author contribution statement

XX designed the experiments. NC performed the experiments, data analysis, and drafted the manuscript. JF helped conceive the study. BS and JH helped analyze data. ST helped draft the manuscript. YZ and SS helped in design and coordination. All authors read and approved the final manuscript.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no competing interests.

Ethical standards

T mongolica is endemic to the western part of Inner Mongolia and Ningxia, Gansu province and also subjected as nationally endangered in China. Before collecting the seeds, an oral permission was obtained from the local management of forestry after applying with introduction letters from College of Life and Environmental Sciences, Minzu University of China.

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© Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  1. 1.College of Life and Environmental SciencesMinzu University of ChinaBeijingChina

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