The reference genome of the paradise fish ( Macropodus opercularis ).

Autor:	Fodor E; Department of Genetics, ELTE Eötvös Loránd University, Budapest, Hungary., Okendo J; Translational and Functional Genomics Branch, National Human Genome Research Institute, Bethesda, MD, USA., Szabó N; Department of Genetics, ELTE Eötvös Loránd University, Budapest, Hungary., Szabó K; Department of Genetics, ELTE Eötvös Loránd University, Budapest, Hungary., Czimer D; Department of Genetics, ELTE Eötvös Loránd University, Budapest, Hungary., Tarján-Rácz A; Department of Genetics, ELTE Eötvös Loránd University, Budapest, Hungary., Szeverényi I; Department of Ethology, ELTE Eötvös Loránd University, Budapest, Hungary., Low BW; Science Unit, Lingnan University, Hong Kong, China., Liew JH; Science Unit, Lingnan University, Hong Kong, China., Koren S; Computational and Statistical Genomics Branch, National Human Genome Research Institute, Bethesda, MD, USA., Rhie A; Computational and Statistical Genomics Branch, National Human Genome Research Institute, Bethesda, MD, USA., Orbán L; Frontline Fish Genomics Research Group, Department of Applied Fish Biology, Institute of Aquaculture and Environmental Safety, Hungarian University of Agriculture and Life Sciences, Georgikon Campus, Keszthely, Hungary., Miklósi Á; Department of Genetics, ELTE Eötvös Loránd University, Budapest, Hungary., Varga M; Department of Genetics, ELTE Eötvös Loránd University, Budapest, Hungary., Burgess SM; Translational and Functional Genomics Branch, National Human Genome Research Institute, Bethesda, MD, USA.
Jazyk:	angličtina
Zdroj:	BioRxiv : the preprint server for biology [bioRxiv] 2023 Aug 10. Date of Electronic Publication: 2023 Aug 10.
DOI:	10.1101/2023.08.10.552018
Abstrakt:	Over the decades, a small number of model species, each representative of a larger taxa, have dominated the field of biological research. Amongst fishes, zebrafish ( Danio rerio ) has gained popularity over most other species and while their value as a model is well documented, their usefulness is limited in certain fields of research such as behavior. By embracing other, less conventional experimental organisms, opportunities arise to gain broader insights into evolution and development, as well as studying behavioral aspects not available in current popular model systems. The anabantoid paradise fish ( Macropodus opercularis ), an "air-breather" species from Southeast Asia, has a highly complex behavioral repertoire and has been the subject of many ethological investigations, but lacks genomic resources. Here we report the reference genome assembly of Macropodus opercularis using long-read sequences at 150-fold coverage. The final assembly consisted of ≈483 Mb on 152 contigs. Within the assembled genome we identified and annotated 20,157 protein coding genes and assigned ≈90% of them to orthogroups. Completeness analysis showed that 98.5% of the Actinopterygii core gene set (ODB10) was present as a complete ortholog in our reference genome with a further 1.2 % being present in a fragmented form. Additionally, we cloned multiple genes important during early development and using newly developed in situ hybridization protocols, we showed that they have conserved expression patterns. Competing Interests: Competing interests None of the authors have any competing interests in the manuscript.
Databáze:	MEDLINE
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