https://doi.org/10.25678/00032R

Data for: A dense linkage map of Lake Victoria cichlids improved the Pundamilia genome assembly and revealed a major QTL for sex-determination

Genetic linkage maps are essential for comparative genomics, high quality genome sequence assembly and fine scale quantitative trait locus (QTL) mapping. In the present study we identified and genotyped markers via restriction-site associated DNA (RAD) sequencing and constructed a genetic linkage map based on 1,597 SNP markers of an interspecific F2 cross of two closely related Lake Victoria cichlids (Pundamilia pundamilia and P. sp. 'red head'). The SNP markers were distributed on 22 linkage groups and the total map size was 1,594 cM with an average marker distance of 1.01 cM. This high-resolution genetic linkage map was used to anchor the scaffolds of the Pundamilia genome and estimate recombination rates along the genome. Via QTL mapping we identified a major QTL for sex in a ∼1.9 Mb region on Pun-LG10, which is homologous to Oreochromis niloticus LG 23 (Ore-LG23) and includes a well-known vertebrate sex-determination gene (amh).

Data and Resources

Citation

This Data Package

Feulner, P. G. D., Schwarzer, J., Haesler, M. P., Meier, J. I., & Seehausen, O. (2021). Data for: A dense linkage map of Lake Victoria cichlids improved the Pundamilia genome assembly and revealed a major QTL for sex-determination (Version 1.0) [Data set]. Eawag: Swiss Federal Institute of Aquatic Science and Technology. https://doi.org/10.25678/00032R

The associated article

Feulner, P. G. D., Schwarzer, J., Haesler, M. P., Meier, J. I., & Seehausen, O. (2018). A Dense Linkage Map of Lake Victoria Cichlids Improved the Pundamilia Genome Assembly and Revealed a Major QTL for Sex-Determination. G3: Genes|Genomes|Genetics, 8(7), 2411–2420. https://doi.org/10.1534/g3.118.200207

Metadata

Open Data Open Data
Author
  • Feulner, Philine G.D.
  • Schwarzer, Julia
  • Haesler, Marcel P.
  • Meier, Joana I.
  • Seehausen, Ole
Keywords genetics of sex,amh,cichlidae,rad,recombination rate,sex chromosome evolution,sex determination,snyteny
Taxa (scientific names)
  • Pundamilia
Organisms (generic terms)
  • F2 cross of two closely related Lake Victoria cichlids (Pundamilia pundamilia and P. sp. 'red head')
Systems
  • laboratory cross
Timerange
  • 2018
Geographic Name(s)
  • data originates from laboratory crosses
Review Level none
Curator Feulner, Philine
Contact philine.feulner@eawag.ch
DOI 10.25678/00032R