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DOI :10.26650/ASE202221172568   IUP :10.26650/ASE202221172568    Full Text (PDF)

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

Münevver Oral

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

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APA

Oral, M. (2023). What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout. Aquatic Sciences and Engineering, 38(1), 1-5. https://doi.org/10.26650/ASE202221172568


AMA

Oral M. What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout. Aquatic Sciences and Engineering. 2023;38(1):1-5. https://doi.org/10.26650/ASE202221172568


ABNT

Oral, M. What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout. Aquatic Sciences and Engineering, [Publisher Location], v. 38, n. 1, p. 1-5, 2023.


Chicago: Author-Date Style

Oral, Münevver,. 2023. “What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout.” Aquatic Sciences and Engineering 38, no. 1: 1-5. https://doi.org/10.26650/ASE202221172568


Chicago: Humanities Style

Oral, Münevver,. “What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout.” Aquatic Sciences and Engineering 38, no. 1 (Jun. 2023): 1-5. https://doi.org/10.26650/ASE202221172568


Harvard: Australian Style

Oral, M 2023, 'What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout', Aquatic Sciences and Engineering, vol. 38, no. 1, pp. 1-5, viewed 4 Jun. 2023, https://doi.org/10.26650/ASE202221172568


Harvard: Author-Date Style

Oral, M. (2023) ‘What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout’, Aquatic Sciences and Engineering, 38(1), pp. 1-5. https://doi.org/10.26650/ASE202221172568 (4 Jun. 2023).


MLA

Oral, Münevver,. “What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout.” Aquatic Sciences and Engineering, vol. 38, no. 1, 2023, pp. 1-5. [Database Container], https://doi.org/10.26650/ASE202221172568


Vancouver

Oral M. What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout. Aquatic Sciences and Engineering [Internet]. 4 Jun. 2023 [cited 4 Jun. 2023];38(1):1-5. Available from: https://doi.org/10.26650/ASE202221172568 doi: 10.26650/ASE202221172568


ISNAD

Oral, Münevver. “What Reference Genome Assemblies Tell Us and How to Detect the Best Available Version: A Case Study in Trout”. Aquatic Sciences and Engineering 38/1 (Jun. 2023): 1-5. https://doi.org/10.26650/ASE202221172568



TIMELINE


Submitted08.09.2022
Accepted02.12.2022
Published Online09.12.2022

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