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A Dense Linkage Map of Lake Victoria Cichlids Improved the Pundamilia Genome Assembly and Revealed a Major QTL for Sex-Determination.

Published version
Peer-reviewed

Type

Article

Change log

Authors

Feulner, Philine GD  ORCID logo  https://orcid.org/0000-0002-8078-1788
Schwarzer, Julia 
Haesler, Marcel P 
Meier, Joana I 
Seehausen, Ole 

Abstract

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).

Description

Keywords

Cichlidae, Genetics of Sex, RAD, XY system, amh, recombination rate, sex chromosome evolution, sex determination, synteny, Animals, Chromosome Mapping, Cichlids, Databases, Genetic, Evolution, Molecular, Genetic Linkage, Genetic Markers, Genomics, Genotype, High-Throughput Nucleotide Sequencing, Lakes, Quantitative Trait Loci, Recombination, Genetic, Sex Determination Processes, Synteny

Journal Title

G3 (Bethesda)

Conference Name

Journal ISSN

2160-1836
2160-1836

Volume Title

8

Publisher

Oxford University Press (OUP)