The Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel

Genome Biology

Philip Watson¹  Natalia Sokolova¹  Clara Becker¹  Erika Tsingos¹  Bettina Welz¹  Omar T. Hammouda¹  Joachim Wittbrodt¹  Jakob Gierten¹  Thomas Thumberger¹  Eva Hasel¹  Colin Lischik¹  Katharina Lust¹  Risa Suzuki¹  Tinatini Tavhelidse¹  Adrien Leger²  Jack Monahan²  Ian Brettell²  Carl Barton²  Ewan Birney²  Tomas Fitzgerald²  Nadia Khouja³  Cathrin Herder³  Natalja Kusminski³  Nadeshda Wolf³  Felix Loosli³  Narendar Aadepu⁴  Kiyoshi Naruse⁵ 

[1] Centre for Organismal Studies, Heidelberg University, Campus Im Neuenheimer Feld 230, 69120, Heidelberg, Germany;European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK;Institute of Biological and Chemical Systems, Biological Information Processing (IBCS-BIP), Karlsruhe Institute of Technology, 76131, Karlsruhe, Germany;Institute of Biological and Chemical Systems, Biological Information Processing (IBCS-BIP), Karlsruhe Institute of Technology, 76131, Karlsruhe, Germany;Centre for Organismal Studies, Heidelberg University, Campus Im Neuenheimer Feld 230, 69120, Heidelberg, Germany;National Institute for Basic Biology, Laboratory of Bioresources, Okazaki, Japan;

关键词: Inbred panel;    Medaka;    Genetics;    Quantitative traits;    Genome sequencing;    Population genetics;    Copy number variation;    eQTL;   

DOI  :  10.1186/s13059-022-02623-z

来源: Springer

【 摘 要 】

BackgroundUnraveling the relationship between genetic variation and phenotypic traits remains a fundamental challenge in biology. Mapping variants underlying complex traits while controlling for confounding environmental factors is often problematic. To address this, we establish a vertebrate genetic resource specifically to allow for robust genotype-to-phenotype investigations. The teleost medaka (Oryzias latipes) is an established genetic model system with a long history of genetic research and a high tolerance to inbreeding from the wild.ResultsHere we present the Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel: the first near-isogenic panel of 80 inbred lines in a vertebrate model derived from a wild founder population. Inbred lines provide fixed genomes that are a prerequisite for the replication of studies, studies which vary both the genetics and environment in a controlled manner, and functional testing. The MIKK panel will therefore enable phenotype-to-genotype association studies of complex genetic traits while allowing for careful control of interacting factors, with numerous applications in genetic research, human health, drug development, and fundamental biology.ConclusionsHere we present a detailed characterization of the genetic variation across the MIKK panel, which provides a rich and unique genetic resource to the community by enabling large-scale experiments for mapping complex traits.

【 授权许可】

CC BY