Readme file for:
Frentiu FD, Yuan F, Savage WK, Bernard GD, Mullen SP and AD Briscoe (2014) “Opsin Clines in
Butterflies Suggest Novel Roles for Insect Photopigments”. Molecular Biology and Evolution, in press.
The following files were used to identify SNPs for cline analyses.
File: S1A Blue Opsin Exon 1 Alignment.fasta
Fasta file of DNA sequence of exon 1 of the BRh (blue opsin) gene
Each sequence represents one individual and has the following identifiers: “Population code and
individual number_Gene_ExonNumber”
Example: “VT1_B_ex1” is individual 1 from VT collection locality, blue opsin gene, exon 1
Population codes with reference to locality numbers given in Figure 1: VT=3; BM=7; PO=6; RG=5;
VA=9; WAIO=8; GA=10; NH=2; WB= 1; MA=4.
File: S1B Blue Opsin Exon 2 Alignment.fasta
Fasta file of DNA sequence of exon 2 of the BRh (blue opsin) gene
Each sequence represents one individual, as described above for file S1A
File: S1C Blue Opsin Exon 3 Alignment.fasta
Fasta file of DNA sequence of exon 3 of the BRh (blue opsin) gene
Each sequence represents one individual, as described above for file S1A
File: S1D Blue Opsin Exon 4 Alignment.fasta
Fasta file of DNA sequence of exon 4 of the BRh (blue opsin) gene
Each sequence represents one individual, as described above for file S1A
File: S1E Blue Opsin Exon 5 Alignment.fasta
Fasta file of DNA sequence of exon 5 of the BRh (blue opsin) gene
Each sequence represents one individual, as described above for file S1A
File: S1F Blue Opsin Exon 6 Alignment.fasta
Fasta file of DNA sequence of exon 6 of the BRh (blue opsin) gene
Each sequence represents one individual, as described above for file S1A
File: S1G Blue Opsin Exon 7 Alignment.fasta
Fasta file of DNA sequence of exon 7 of the BRh (blue opsin) gene
Each sequence represents one individual, as described above for file S1A
File: S2 LW Opsin Alignment.fasta
Fasta file of DNA sequence of LWRh opsin gene
Each sequence represents one individual and has the following identifiers: “Species name_Locality
&Individual Number”
Population codes with reference to locality numbers given in Figure 1: VT=3; BM=7; PO=6; RG=5;
VA=9; WAIO=8; SM=10; NH=2; WB= 1; F=4
1
File: S3 UV opsin alignment.fasta
Fasta file of DNA sequence of UVRh opsin gene
Each sequence represents one individual and has the following identifiers: “Species name_Locality
&Individual Number”
Population codes with reference to locality numbers given in Figure 1: VT=3; BM=7; PO=6; RG=5;
VA=9; WAIO=8; GA=10; NH=2; WB= 1; F=4
File: S4 wingless gene alignment.fasta
Fasta file of DNA sequence of wingless gene
Each sequence represents one individual and has the following identifiers: “Species name_Locality
&Individual Number”
Population codes with reference to locality numbers given in Figure 1: VT=3; BM=7; PO=6; RG=5;
VA=9; WAIO=8; GA=10; NH=2; WB= 1; F=4
File: S6 EF1alpha alignment.fasta
Fasta file of DNA sequence of EF1-alpha gene
Each sequence represents one individual and has the following identifiers: “Species name_Locality
&Individual Number”
Population codes with reference to locality numbers given in Figure 1: VT=3; BM=7; PO=6; RG=5;
VA=9; WAIO=8; GA=10; NH=2; WB= 1; F=4
2