Extremophiles

, Volume 17, Issue 3, pp 391–403

Next-generation sequencing-based transcriptome profiling analysis of Pohlia nutans reveals insight into the stress-relevant genes in Antarctic moss

  • Shenghao Liu
  • Nengfei Wang
  • Pengying Zhang
  • Bailin Cong
  • Xuezheng Lin
  • Shouqiang Wang
  • Guangmin Xia
  • Xiaohang Huang
Original Paper

DOI: 10.1007/s00792-013-0528-6

Cite this article as:
Liu, S., Wang, N., Zhang, P. et al. Extremophiles (2013) 17: 391. doi:10.1007/s00792-013-0528-6

Abstract

Genome-wide characterization of the Pohlia nutans transcriptome is essential for clarifying the role of stress-relevant genes in Antarctic moss adapting to the extreme polar environment. High-throughput Illumina sequencing was used to analyze the gene expression profile of P. nutans after cold treatment. A total of 93,488 unigenes, with an average length of 405 bp, were obtained. Gene annotation showed that 16,781 unigenes had significant similarity to known functional protein-coding genes, most of which were annotated using the GO, KOG and KEGG pathway databases. Global profiling of the differentially expressed genes revealed that 3,796 unigenes were significantly upregulated after cold treatment, while 1,405 unigenes were significantly downregulated. In addition, 816 receptor-like kinases and 1,309 transcription factors were identified from P. nutans. This overall survey of transcripts and stress-relevant genes can contribute to understanding the stress-resistance mechanism of Antarctic moss and will accelerate the practical exploitation of the genetic resources for this organism.

Keywords

MossesTranscriptomeGene expression profilingHigh-throughput RNA sequencingCold treatment

Supplementary material

792_2013_528_MOESM1_ESM.doc (50 kb)
Supplementary Table 1 (DOC 50 kb)
792_2013_528_MOESM2_ESM.doc (50 kb)
Supplementary Table 2 (DOC 50 kb)
792_2013_528_MOESM3_ESM.ppt (478 kb)
Supplementary material 3 (PPT 478 kb)

Copyright information

© Springer Japan 2013

Authors and Affiliations

  • Shenghao Liu
    • 1
    • 2
  • Nengfei Wang
    • 1
  • Pengying Zhang
    • 3
  • Bailin Cong
    • 1
  • Xuezheng Lin
    • 1
  • Shouqiang Wang
    • 1
  • Guangmin Xia
    • 2
  • Xiaohang Huang
    • 1
  1. 1.Key Laboratory of Marine Bioactive Substance, The First Institute of OceanographyState Oceanic AdministrationQingdaoPeople’s Republic of China
  2. 2.School of Life ScienceShandong UniversityJinanPeople’s Republic of China
  3. 3.National Glycoengineering Research CenterShandong UniversityJinanPeople’s Republic of China