Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2025 Apr 2;18(1):139.
doi: 10.1186/s13104-025-07163-w.

De Novo transcriptome assembly and annotation of the wild service tree Sorbus torminalis (L.) Crantz

Sara Pinosio  1 , Camilla Avanzi  2 , Francesca Bagnoli  2 , Ilaria Spanu  2 , Giovanni Giuseppe Vendramin  2 , Andrea Piotti  2
Affiliations

De Novo transcriptome assembly and annotation of the wild service tree Sorbus torminalis (L.) Crantz

Sara Pinosio et al. BMC Res Notes. .

Abstract

Objectives: The wild service tree, Sorbus torminalis (L.) Crantz, is a sub-Mediterranean forest tree species native to Europe, Asia Minor, Caucasus and north-western Africa. Despite its ecological and societal importance, publicly available molecular resources for this species are scarce, limited to the chloroplast genome. Within the European Project FORGENIUS (Improving access to FORest GENetic resources Information and services for end-Users, Grant Agreement ID: 862221) we assembled the transcriptome of the wild service tree with the aim to use it as reference to develop new genetic markers and perform a large-scale population genetics study in this species.

Data description: An RNA-seq library was generated from pooled RNA extracted from four different tissues (young leaves, mature leaves, stems and roots) of a single S. torminalis sapling and sequenced on the Illumina HiSeq 2500 platform. This dataset was used to produce and annotate the first transcriptome assembly for S. torminalis, paving the way for future genomic research and applications in this species. For example, this study will facilitate the development of molecular markers such as SSRs and SNPs, useful for genetic studies, breeding programs, and conservation efforts and will serve as a reference for future differential expression studies, providing a deeper understanding of the species' biology.

Keywords: Sorbus torminalis; Torminalis glaberrima; De Novo assembly; Forest tree; RNA-seq; Transcriptome.

PubMed Disclaimer

Conflict of interest statement

Declarations. Ethics approval and consent to participate: Plant material was provided by the public nursery of Veneto Agricoltura (Montecchio Precalcino, VI, Italy; https://www.venetoagricoltura.org/ ). Veneto Agricoltura is formally involved in the FORGENIUS project as a stakeholder, and all the material is produced in accordance with local legislation. Consent for publication: Not applicable. Competing interests: The authors declare no competing interests.

References

    1. Ak G, Tüfekci EF, Mustafa AM, Caprioli G, Altunoglu YC, Baloglu MC, et al. Exploring Sorbus torminalis leaves: unveiling a promising natural resource for diverse chemical and biological applications. Chem Biodivers. 2024;21:e202301596. - PubMed
    1. Eriksson G. Conservation of noble hardwoods in Europe. https://doi.org/101139/x00-134. 2011;31:577–87.
    1. Oddou-Muratorio S, Houot ML, Demesure-Musch B, Austerlitz F. Pollen flow in the wildservice tree, Sorbus torminalis (L.) Crantz. I. Evaluating the paternity analysis procedure in continuous populations. Mol Ecol. 2003;12:3427–39. - PubMed
    1. Jankowska-Wroblewska S, Meyza K, Sztupecka E, Kubera L, Burczyk J. Clonal structure and high genetic diversity at peripheral populations of Sorbus torminalis (L.) Crantz. iForest - Biogeosciences for. 2016;9:892.
    1. Kavaliauskas D, Šeho M, Baier R, Fussi B. Genetic variability to assist in the delineation of provenance regions and selection of seed stands and gene conservation units of wild service tree (Sorbus torminalis (L.) Crantz) in Southern Germany. Eur J Res. 2021;140:551–65.

LinkOut - more resources