12863_2020_889_MOESM1_ESM.pdf (456.32 kB)
Additional file 1 of Characterization of two MHC II genes (DOB, DRB) in white-tailed deer (Odocoileus virginianus)
journal contribution
posted on 2020-07-30, 06:20 authored by Natascha M. D. Ivy-Israel, Carolyn E. Moore, Tonia S. Schwartz, Stephen S. DitchkoffAdditional file 1:Table S1.MHC-DRB exon 2 alleles whose frequencies did not meet the minimum allele frequency (0.67%). No pedigree or sanger data was available to validate these sequences, and they only occurred once in our white-tailed deer population. Table S2.MHC-DRB exon 2 alleles found in our white-tailed deer population and their frequencies. (^ indicates that these alleles translated into the same amino acid sequence). Table S3. number of nucleotide (below diagonal) and amino acid (above diagonal) differences between MHC-DRB exon 2 alleles for white-tailed deer. Table S4. Genotype frequencies (%) for MHC-DRB exon 2 alleles in our white-tailed deer population. Table S5.MHC-DOB alleles for both the extended sequence (360 bp) and exon 2 (270 bp) found in our white-tailed deer population and their frequencies. (# and ^ indicates that these alleles translated into the same amino acid sequence). Table S6. Number of nucleotide (below diagonal) and amino acid (above diagonal) differences between the extended MHC-DOB sequence (360 bp) alleles for white-tailed deer. The amino acid differences correspond to the amino acid differences seen in MHC-DOB exon 2 (table S7). Table S7. Number of nucleotide (below diagonal) and amino acid (above diagonal) differences between MHC-DOB exon 2 (270 bp) alleles for white-tailed deer. Table S8. Genotype frequencies (%) for the extended MHC-DOB sequence (360 bp) alleles in our white-tailed deer population. Table S9. Genotype frequencies (%) for MHC-DOB exon 2 (270 bp) alleles in our white-tailed deer population. Figure S1. Cumulative mean codon-by-codon ratio of synonymous to nonsynonymous substitutions (dS/dN) for MHC-DRB exon 2. Nonsynonymous substitutions are significantly more common than synonymous substitutions for MHC-DRB exon 2 in white-tailed deer. Figure S2. Cumulative mean codon-by-codon ratio of synonymous to non-synonymous substitutions (dS/dN) for MHC-DOB exon 2. Synonymous substitutions are overall more common than nonsynonymous substitutions