University of Oulu

Nguyen, N., Suokas, M., Karppinen, K., Vuosku, J., Jaakola, L., Häggman, H. (2018) Recognition of candidate transcription factors related to bilberry fruit ripening by de novo transcriptome and qRT-PCR analyses. Scientific Reports, 8 (1), 9943. doi:10.1038/s41598-018-28158-7

Recognition of candidate transcription factors related to bilberry fruit ripening by de novo transcriptome and qRT-PCR analyses

Saved in:
Author: Nguyen, Nga1; Suokas, Marko1,2; Karppinen, Katja1;
Organizations: 1Department of Ecology and Genetics, University of Oulu
2Biocenter Oulu, University of Oulu
3Climate laboratory Holt, Department of Arctic and Marine Biology, UiT the Arctic University of Norway
4NIBIO, Norwegian Institute of Bioeconomy Research
Format: article
Version: published version
Access: open
Online Access: PDF Full Text (PDF, 4.3 MB)
Persistent link:
Language: English
Published: Springer Nature, 2018
Publish Date: 2018-09-05


Bilberry (Vaccinium myrtillus L.) fruits are an excellent natural resource for human diet because of their special flavor, taste and nutritional value as well as medical properties. Bilberries are recognized for their high anthocyanin content and many of the genes involved in the anthocyanin biosynthesis have been characterized. So far, neither genomic nor RNA-seq data have been available for the species. In the present study, we de novo sequenced two bilberry fruit developmental stages, unripe green (G) and ripening (R). A total of 57,919 unigenes were assembled of which 80.2% were annotated against six public protein databases. The transcriptome served as exploratory data to identify putative transcription factors related to fruit ripening. Differentially expressed genes (DEGs) between G and R stages were prominently upregulated in R stage with the functional annotation indicating their main roles in active metabolism and catalysis. The unigenes encoding putative ripening-related regulatory genes, including members of NAC, WRKY, LOB, ERF, ARF and ABI families, were analysed by qRT-PCR at five bilberry developmental stages. Our de novo transcriptome database contributes to the understanding of the regulatory network associated with the fruit ripening in bilberry and provides the first dataset for wild Vaccinium species acquired by NGS technology.

see all

Series: Scientific reports
ISSN: 2045-2322
ISSN-E: 2045-2322
ISSN-L: 2045-2322
Volume: 8
Issue: 1
Article number: 9943
DOI: 10.1038/s41598-018-28158-7
Type of Publication: A1 Journal article – refereed
Field of Science: 1184 Genetics, developmental biology, physiology
1183 Plant biology, microbiology, virology
Dataset Reference: Electronic supplementary material
Copyright information: © The Author(s) 2018. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit