Biodiv Sci ›› 2016, Vol. 24 ›› Issue (12): 1325-1334.DOI: 10.17520/biods.2016231

• Original article • Previous Articles     Next Articles

De novo transcriptome analysis of the rare fern Monachosorum maximowiczii (Dennstaedtiaceae) endemic to East Asia

Li Liu1,3, Jiangping Shu1,3, Hongjin Wei1, Rui Zhang1, Hui Shen1,*(), Yuehong Yan1,2   

  1. 1 Shanghai Chenshan Botanical Garden, Shanghai Chenshan Plant Science Research Center, Chinese Academy of Sciences, Shanghai 201602
    2 National Conservation Center for Endangered Useful Plants in East China, Shanghai 201602
    3 College of Life and Environmental Sciences, Shanghai Normal University, Shanghai 200234
  • Received:2016-08-23 Accepted:2016-11-09 Online:2016-12-20 Published:2017-01-10
  • Contact: Hui Shen

Abstract:

Monachosorum maximowiczii, which belongs to the family Dennstaedtiaceae, is a unique fern rarely distributed in the middle-high altitudinal areas in East Asia. In order to identify the molecular basis of this species at the transcriptome level, a second generation sequencing technology (RNA-seq) was employed here for the first time. Using Illumina Hiseq 2500 platform, a total of 4.95 Gb raw data were obtained. After filtration, 4.83 Gb clean reads were kept and 101,448 unigene were generated using de novo assembly. Among them, 54,106 unigene were predicted to have a complete open reading frame. The functional annotation of the unigene obtained here was carried out using the Phytozome v11.0 databases. The gene function pattern and participated pathway were further explored based on GO, COG and KEGG annotation. Meanwhile, transcription factors prediction and analysis will provide preliminary insights into mechanisms of Monachosorum maximowiczii for environmental adaptation.

Key words: ferns, transcriptomics, high-throughput sequencing, biodiversity, adaptation