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Comparative Analysis of the Shared Sex-Determination Region (SDR) among Salmonid Fishes.

Faber-Hammond JJ, Phillips RB, Brown KH - Genome Biol Evol (2015)

Bottom Line: This variation results from the movement of the sex-determining gene, sdY, throughout the salmonid genome.We found approximately 4.1 kb of orthologous sequence common to all three species, which contains the genetic content necessary for masculinization.The regions contain transposable elements that may be responsible for the translocations of the SDR throughout salmonid genomes and we examine potential mechanistic roles of each one.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Portland State University School of Biological Sciences, Washington State University Vancouver.

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Pairwise sliding window alignments between each SDR contig. Evolutionary Conserved Regions (ECRs) were confirmed independently through phylogenetic analysis and are reported in blue. Red alignment blocks have greater than 50% sequence identity, however are not related by descent. Omy, O. mykiss, Ots, O. tshawytscha, Ssa, S. salar. The sdY mRNA sequences are almost entirely contained within the orthologous sequence shared by all three species in each comparison.
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evv123-F2: Pairwise sliding window alignments between each SDR contig. Evolutionary Conserved Regions (ECRs) were confirmed independently through phylogenetic analysis and are reported in blue. Red alignment blocks have greater than 50% sequence identity, however are not related by descent. Omy, O. mykiss, Ots, O. tshawytscha, Ssa, S. salar. The sdY mRNA sequences are almost entirely contained within the orthologous sequence shared by all three species in each comparison.

Mentions: Assembly of the sdY-containing BAC clones in Atlantic salmon and rainbow trout provided SDR contigs of 32,566 bp (GB: KJ851799) and 31,198 bp (GB: KJ851798), respectively. The Chinook salmon SDR was extended to 16,722 bp (supplementary file S2, Supplementary Material online), compared with the previously published 12,567 bp OtY3 contig. Atlantic salmon is the most distantly related species of the three salmonid fishes examined (Oakley and Phillips 1999), and as such shares lower orthology with Chinook salmon and rainbow trout than Chinook and rainbow share with each other, both in percent identity and alignment length (table 2). The Atlantic salmon SDR contig aligns with Chinook salmon and rainbow trout across 4.1 kb (minus gaps) with 83.2% and 84.3% sequence identity, respectively. The shared orthology between rainbow trout and Chinook salmon covers approximately 11 kb of sequence (minus gaps) with 96% sequence identity to each other (fig. 2).Fig. 2.—


Comparative Analysis of the Shared Sex-Determination Region (SDR) among Salmonid Fishes.

Faber-Hammond JJ, Phillips RB, Brown KH - Genome Biol Evol (2015)

Pairwise sliding window alignments between each SDR contig. Evolutionary Conserved Regions (ECRs) were confirmed independently through phylogenetic analysis and are reported in blue. Red alignment blocks have greater than 50% sequence identity, however are not related by descent. Omy, O. mykiss, Ots, O. tshawytscha, Ssa, S. salar. The sdY mRNA sequences are almost entirely contained within the orthologous sequence shared by all three species in each comparison.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4524489&req=5

evv123-F2: Pairwise sliding window alignments between each SDR contig. Evolutionary Conserved Regions (ECRs) were confirmed independently through phylogenetic analysis and are reported in blue. Red alignment blocks have greater than 50% sequence identity, however are not related by descent. Omy, O. mykiss, Ots, O. tshawytscha, Ssa, S. salar. The sdY mRNA sequences are almost entirely contained within the orthologous sequence shared by all three species in each comparison.
Mentions: Assembly of the sdY-containing BAC clones in Atlantic salmon and rainbow trout provided SDR contigs of 32,566 bp (GB: KJ851799) and 31,198 bp (GB: KJ851798), respectively. The Chinook salmon SDR was extended to 16,722 bp (supplementary file S2, Supplementary Material online), compared with the previously published 12,567 bp OtY3 contig. Atlantic salmon is the most distantly related species of the three salmonid fishes examined (Oakley and Phillips 1999), and as such shares lower orthology with Chinook salmon and rainbow trout than Chinook and rainbow share with each other, both in percent identity and alignment length (table 2). The Atlantic salmon SDR contig aligns with Chinook salmon and rainbow trout across 4.1 kb (minus gaps) with 83.2% and 84.3% sequence identity, respectively. The shared orthology between rainbow trout and Chinook salmon covers approximately 11 kb of sequence (minus gaps) with 96% sequence identity to each other (fig. 2).Fig. 2.—

Bottom Line: This variation results from the movement of the sex-determining gene, sdY, throughout the salmonid genome.We found approximately 4.1 kb of orthologous sequence common to all three species, which contains the genetic content necessary for masculinization.The regions contain transposable elements that may be responsible for the translocations of the SDR throughout salmonid genomes and we examine potential mechanistic roles of each one.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Portland State University School of Biological Sciences, Washington State University Vancouver.

Show MeSH
Related in: MedlinePlus