Genes & Genomics

, Volume 40, Issue 4, pp 349–359 | Cite as

Transcriptome profiling of PeCRY1 transgenic Populus tomentosa

Research Article
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Abstract

Cryptochromes, a class of blue light photoreceptors, play vital roles in regulating growth and development in higher plants. Despite their control over various important traits, there have been few studies focusing on cryptochromes in forest trees to date. In this study, the Euphrates poplar (Populus euphratica) gene PeCRY1 (cryptochrome 1 of Populus euphratica) was isolated and heterologously expressed in Populus tomentosa. Three biological replicates of each of the PeCRY1 transgenic P. tomentosa (CRY1) and wild-type (WT) plants were processed for transcriptome profiling. We found 34792 commonly expressed transcripts among the 93868 detected unigenes. Using R package DESeq, we identified 357 differentially expressed genes (DEGs), including 132 upregulated and 225 downregulated genes. Gene ontology (GO) enrichment and KEGG pathway enrichment were used to better understand the functions of detected DEGs. Biosynthetic processes, such as starch and sucrose metabolism, which are closely related to growth and development, were highly enriched. Organic cyclic compound biosynthesis was downregulated, whereas carbohydrate metabolism was upregulated. Through KEGG pathway enrichment, we observed that the pentose phosphate pathway, photosynthesis, and circadian rhythm were significantly enriched. Another method of expression analysis based on quantitative reverse transcription polymerase chain reaction (qRT-PCR) validated our RNA sequencing (RNA-seq) results.

Keywords

Transcriptome Populus tomentosa Euphrates poplar RNA-seq Cryptochromes 

Notes

Acknowledgements

This work is supported by Special Fund for Forest Scientific Research in the Public Welfare (201404102), Changjiang Scholars Award and “Thousand-person Plan” Award and the Fundamental Research Funds for the Central Universities (NO.BLX2014-22).

Author contributions

RW and WB conceived and designed the experiments. LW performed the experiments, analyzed the data and wrote the paper. WB contributed reagents/materials/analysis tools.

Compliance with ethical standards

Conflict of interest

All of the authors Wenhao Bo, Rongling Wu and Wang Lina declare no competing financial interests.

Ethical approval

The subject of this study is the forest tree Euphrates poplar, which grows widely in Northwest China. The transgenic receptor is Populus tomentosa, which is distributed throughout most of China. Neither is an endangered species. The transgenic plants were all cultured in a laboratory setting, and the laboratory is not personally owned. There was no permit required for this study.

Research involving human and animal rights

The article does not contain any studies with human participants performed by any of the authors.

Supplementary material

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Copyright information

© The Genetics Society of Korea and Springer Science+Business Media B.V., part of Springer Nature 2017

Authors and Affiliations

  1. 1.Center for Computational Biology, National Engineering Laboratory for Tree Breeding, College of Biological Sciences and TechnologyBeijing Forestry UniversityBeijingChina

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