What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout

Year 2023, , 1 - 5, 24.01.2023

Münevver Oral

https://doi.org/10.26650/ASE202221172568

Abstract

Genomic studies have largely been accelerated by the advances of next generation sequencing technologies since the beginning of the millennium. This, in turn, has motivated the generation of more reference genome assemblies not only in model organisms but also in species of scientific interest. In the present study, we employed a comparison study between the two different reference genome assemblies available for the same species, Salmo trutta, in GenBank. The results indicated an overall 90% similarity index between the two assemblies. Furthermore, the inversion regions of which assembly needs corrections were detected. Taking into account the whole genome duplication origin of the Salmonidae family, both assemblies were of good quality. However, the updated version of the Wellcome Sanger Institute assembly (fSalTru_1.2) outperformed the Norwegian assembly and was detected as the best available reference genome assembly in Salmo trutta.

Keywords

Reference genome, genome comparison, brown trout, Salmo trutta

Supporting Institution

TUBITAK-2219 PostDoc & RTEU-BAP

Project Number

BAP (FBA-2022-1355)

Thanks

Pierre Alexandre Garnier - The Institute of Evolutionary Science of Montpellier University (ISEM)

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• URL - 1: https://www.ncbi.nlm.nih.gov/data-hub/taxonomy/1/ [Accession date: 19.08.2022, 10.40 am]