Fig. 2: Genetic variants at the TSHR locus strongly associated with seasonal reproduction in Atlantic herring. | Communications Biology

Fig. 2: Genetic variants at the TSHR locus strongly associated with seasonal reproduction in Atlantic herring.

From: Functional differences between TSHR alleles associate with variation in spawning season in Atlantic herring

Fig. 2

a Interspecies sequence alignment of the TSHR domains including the two major missense mutations in herring TSHR. Residues with hydrophobic (green), positively charged (blue), or negatively charged (red) side chains are highlighted. The amino acid composition of the 22aa repeat at the C terminus of herring TSHR is also shown with the potential phosphorylation threonine (T) sites highlighted in red and negatively charged glutamic acid (E) highlighted in green. b) Comparison of the genomic region harboring the TSHR locus between the Spring and Autumn haplotypes reveals a 5.2 kb insertion in the Spring allele about 2.15 kb upstream of the TSHR TSS. The Spring haplotype harbors both Rex1 and BEL/Pao elements while the BEL/Pao internal sequence with its left LTR (indicated between the two arrowed dash lines) is absent in the autumn haplotype. Locations of genotyping primers for this structural variant are indicated by red arrows. c Haplotype analysis of six differentiated sequence variants among 45 spring-spawning, 67 autumn-spawning Atlantic herring and 13 Pacific herring. The genomic location of each sequence variant is indicated.

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