De novo characterization of the Lycium ruthenicum transcriptome and analysis of its digital gene expression profiles during fruit development and ripening


  • Yong Peng Beijing Laboratory for Food Quality and Safety, College of Food Sciences and Nutrition Engineering, China Agriculture University, Beijing
  • Huiqin Ma College of Horticulture, China Agricultural University, Beijing
  • Shangwu Chen 1. Beijing Laboratory for Food Quality and Safety, College of Food Sciences and Nutrition Engineering, China Agriculture University, Beijing; 2. Beijing Advanced Innovation Center for Food Nutrition and Human Health, China Agricultural University, Beijing


de novo characterization, digital gene expression profiles, fruit development, Lycium ruthenicum, transcriptome


 Lycium ruthenicum Murr., which belongs to the family Solanaceae, is a resource plant for Chinese traditional medicine and nutraceutical foods. In this study, RNA sequencing was applied to obtain raw reads of L. ruthenicum fruit at different stages of ripening, and a de novo assembly of its sequence was performed. Approximately 52.45 million 100-bp paired-end raw reads were generated from the samples by deep RNA-seq analysis. These short reads were assembled to obtain 164814 contigs, and the contigs were assembled into 84968 non-redundant unigenes using the Trinity method. Assembled sequences were annotated with gene descriptions, gene ontology, clusters of orthologous group and KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway terms. Digital gene expression analysis was applied to compare gene-expression patterns at different fruit developmental stages. These results contribute to existing sequence resources for Lycium spp. during the fruit-ripening stages, which is valuable for further functional studies of genes involved in L. ruthenicum fruit nutraceutical quality.

DOI: 10.2298/ABS160123125P

Received: January 23, 2016; Revised: March 16, 2016; Accepted: April 4, 2016; Published online: November 11, 2016

How to cite this article: Peng Y, Ma H, Chen S. De novo characterization of the Lycium ruthenicum transcriptome and analysis of its digital gene expression profiles during fruit development and ripening. Arch Biol Sci. 2017;69(1):181-90.


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How to Cite

Peng Y, Ma H, Chen S. De novo characterization of the Lycium ruthenicum transcriptome and analysis of its digital gene expression profiles during fruit development and ripening. Arch Biol Sci [Internet]. 2017Mar.8 [cited 2022Jan.19];69(1):181-90. Available from: