Fig. 2
From: Asymmetric and parallel subgenome selection co-shape common carp domestication
Genome-wide selection signatures associated with scale reduction in common carp domestication. a Genome-wide selection signals. Tracks A and B are Tajima’s D in the scale-reduced domesticated group and fully scaled wild group, respectively; Tracks C and D are CLR scores in the scale-reduced domesticated group and fully scaled wild group, respectively; Track E is FST between the scale-reduced domesticated group and fully scaled wild group; Track F is the synteny between subgenomes A and B. Chromosomes with signatures of selection are highlighted with larger font size of names (Additional file 2: Table S4). b Genomic regions with selection sweep signals on chromosome A09. Tajima’s D and CLR scores are calculated in the scale-reduced domesticated group (red lines) and the fully scaled wild group (blue lines), respectively. FST is calculated between the scale-reduced domesticated group and the fully scaled wild group (gray line), between the scale-reduced domesticated group and the fully scaled (wild and domesticated) group (orange line), and between the scale-reduced domesticated group and the fully scaled domesticated group (pink line). Light blue vertical bars with indicate the selection regions. Genes in the genomic regions (light blue vertical bars) with selection sweep signals are listed. c Genotypes of SNPs showing higher genetic differentiation between scale-reduced and fully scaled common carps in genomic regions with selection sweep signals on chromosome A09. d The GO in genomic regions with selection sweep signals related to scale reduction. e Genotypes of SNPs in the gene abca12 and extended haplotype homozygosity (EHH) around the crucial SNP “A09:8573491” and “A09:8589164.” f Genotypes of SNPs in the gene morc3a and EHH around the crucial SNP “A09:11711312”