De novo genome assembly and functional annotation for Fusarium langsethiae

BMC Genomics

Naresh Magan¹  Carol Verheecke-Vaessen¹  Angel Medina¹  Ya Zuo²  Fady Mohareb²  Corentin Molitor² 

[1] Applied Mycology Group, Environment and AgriFood Theme, Cranfield University, College Road, MK43 0AL, Bedford, UK;The Bioinformatics Group, Cranfield Soil and Agrifood Institute, School of Water, Energy and Environment, Cranfield University, College Road, MK43 0AL, Bedford, UK;

关键词: Mycotoxins;    T-2;    HT-2;    Oats;    Trichothecenes;    Long reads;   

DOI  :  10.1186/s12864-022-08368-0

来源: Springer

【 摘 要 】

BackgroundFusarium langsethiae is a T-2 and HT-2 mycotoxins producing species firstly characterised in 2004. It is commonly isolated from oats in Northern Europe. T-2 and HT-2 mycotoxins exhibit immunological and haemotological effects in animal health mainly through inhibition of protein, RNA and DNA synthesis. The development of a high-quality and comprehensively annotated assembly for this species is therefore essential in providing the molecular understanding and the mechanism of T-2 and HT-2 biosynthesis in F. langsethiae to help develop effective control strategies.ResultsThe F. langsethiae assembly was produced using PacBio long reads, which were then assembled independently using Canu, SMARTdenovo and Flye. A total of 19,336 coding genes were identified using RNA-Seq informed ab-initio gene prediction. Finally, predicting genes were annotated using the basic local alignment search tool (BLAST) against the NCBI non-redundant (NR) genome database and protein hits were annotated using InterProScan. Genes with blast hits were functionally annotated with Gene Ontology.ConclusionsWe developed a high-quality genome assembly of a total length of 59 Mb and N50 of 3.51 Mb. Raw sequence reads and assembled genome is publicly available and can be downloaded from: GenBank under the accession JAFFKB000000000.All commands used to generate this assembly are accessible via GitHub: https://github.com/FadyMohareb/fusarium_langsethiae.

【 授权许可】

CC BY