Acta Oceanologica Sinica

, Volume 33, Issue 2, pp 20–26 | Cite as

Transcriptome characterization of Ishige okamurae (Phaeophyceae) shows strong environmental acclimation

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Abstract

Ishige okamurae, with leathery branched narrow fronds consisting of cylindrical hairs, is the typical species of the genus Ishige, which is considered as one of the most basal genera in the phylogeny of the Phaeophyceae. Apart from great public interest from the evolutionary respect, more attention has been brought on the abundant bioactive compounds in I. okamurae for therapeutic or economic considerations, such as diphlorethohydroxycarmalol and ishigoside. Yet little is known about related key genes or metabolic pathways involved in I. okamurae, which calls upon us to carry out global analyses of transcriptome by next generation sequencing. Altogether, we obtained 78 583 assembled scaffolds with N50 of 1 709 nucleotides, and 25 357 unigenes with significant BLAST matches (E-value cutoff of 10−5). In terms of characterization of the transcriptome of I. okamurae, we focused on anti-stress metabolic pathways and synthetic routes of bioactive compounds in an attempt to obtain a better understanding of the interactive organism-environment regulatory networks. Pathway-based analysis helped us to deepen our comprehension of the interaction between I. okamurae and its surroundings, with MAPK signal pathway as an example. Furthermore, we discovered a wide range of novel putative functional proteins that could be of wide application, such as Rab family, using sequence-based transcriptome. In conclusion, transcriptome characterization of I. okamurae (Phaeophyceae) shows strong environmental acclimation.

Key words

Ishige okamurae transcriptome environmental acclimation Rab 
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Copyright information

© The Chinese Society of Oceanography and Springer-Verlag Berlin Heidelberg 2014

Authors and Affiliations

  • Jieqiong Qu
    • 1
  • Xumin Wang
    • 2
    • 3
  • Shan Chi
    • 1
  • Shuangxiu Wu
    • 2
    • 3
  • Jing Sun
    • 2
    • 3
  • Cui Liu
    • 1
  • Shengping Chen
    • 4
  • Jun Yu
    • 2
    • 3
  • Tao Liu
    • 1
  1. 1.College of Marine Life ScienceOcean University of ChinaQingdaoChina
  2. 2.CAS Key Laboratory of Genome Sciences and Information, Beijing Key Laboratory of Genome and Precision Medicine Technologies, Beijing Institute of GenomicsChinese Academy of SciencesBeijingChina
  3. 3.Beijing Key Laboratory of Functional Genomics for Dao-di Herbs, Beijing Institute of GenomicsChinese Academy of SciencesBeijingChina
  4. 4.Guangdong Province Key Laboratory of Functional Molecules in Oceanic Microorganism, Zhong Shan School of MedicineSun Yat-Sen UniversityGuangzhouChina

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