Table 2. Summary of transcriptome data for 8 tissues in three M. m. domesticus populations.
| Population - map location | Population ID | Population ID | sex | Genome Sample ID | transcriptome Sample ID | available tissues | Mapped reads Brain | proportion of mapped reads Brain (%) | ENA sample accession | Mapped reads Gut | proportion of mapped reads Gut (%) | ENA sample accession | Mapped reads Heart | proportion of mapped reads Heart (%) | ENA sample accession | Mapped reads Kidney | proportion of mapped reads Kidney (%) | ENA sample accession | Mapped reads Liver | proportion of mapped reads Liver (%) | ENA sample accession | Mapped reads Lung | proportion of mapped reads Lung (%) | ENA sample accession | Mapped reads Muscle | proportion of mapped reads (%) Muscle | ENA sample accession | Mapped reads Testis | proportion of mapped reads Testis (%) | ENA sample accession | Mapped reads Spleen | proportion of mapped reads Spleen (%) | ENA sample accession | Mapped reads Thyroid | proportion of mapped reads Tyroid (%) | ENA sample accession |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| NA=tissue not available |
||||||||||||||||||||||||||||||||||||
| France (Massif Central) - 1 | MC | FRA1 | male | 14 | 14 | 9 | 2.75E+07 | (95.0%) | ERS986056 | NA | NA | NA | 2.56E+07 | (95.8%) | ERS986071 | 3.22E+07 | (95.4%) | ERS986080 | 4.26E+07 | (89.7%) | ERS986088 | 3.01E+07 | (95.0%) | ERS986097 | 3.43E+07 | (95.6%) | ERS986101 | 3.62E+07 | (94.7%) | ERS986118 | 3.08E+07 | (94.1%) | ERS986110 | 2.49E+07 | (91.1%) | ERS986059 |
| France (Massif Central) - 1 | MC | FRA2 | male | 15B | 15b | 10 | 2.40E+07 | (95.5%) | ERS986057 | 2.60E+07 | (95.0%) | ERS986065 | 3.47E+07 | (96.0%) | ERS986072 | 3.13E+07 | (95.1%) | ERS986081 | 3.24E+07 | (91.8%) | ERS986090 | NA | NA | NA | 2.97E+07 | (96.1%) | ERS986102 | 3.25E+07 | (90.9%) | ERS985990 | 3.42E+07 | (95.0%) | ERS986111 | 2.30E+07 | (92.1%) | ERS986044 |
| France (Massif Central) - 1 | MC | FRA3 | male | 16B | 16b | 9 | 3.20E+07 | (95.5%) | ERS986058 | 2.43E+07 | (94.3%) | ERS986066 | 3.11E+07 | (96.1%) | ERS986073 | 3.01E+07 | (95.1%) | ERS986082 | 3.77E+07 | (91.4%) | ERS986091 | NA | NA | NA | 3.70E+07 | (95.4%) | ERS986103 | 3.77E+07 | (91.1%) | ERS985991 | 3.55E+07 | (95.2%) | ERS986112 | 2.47E+07 | (90.9%) | ERS986029 |
| France (Massif Central) - 1 | MC | FRA4 | male | 18B | 18b | 9 | 3.31E+07 | (95.6%) | ERS986060 | 2.87E+07 | (93.7%) | ERS986067 | 3.22E+07 | (96.1%) | ERS986075 | 3.28E+07 | (95.7%) | ERS986083 | 4.08E+07 | (89.4%) | ERS986092 | 3.27E+07 | (94.7%) | ERS986098 | 3.44E+07 | (95.8%) | ERS986105 | 3.42E+07 | (91.3%) | ERS986005 | 3.31E+07 | (94.6%) | ERS986113 | 2.21E+07 | (89.9%) | ERS985984 |
| France (Massif Central) - 1 | MC | FRA5 | male | B2C | B2C | 9 | 2.98E+07 | (95.5%) | ERS986061 | 2.91E+07 | (94.4%) | ERS986068 | 3.09E+07 | (95.7%) | ERS986076 | 3.49E+07 | (95.3%) | ERS986084 | 3.78E+07 | (90.2%) | ERS986093 | NA | NA | NA | 3.33E+07 | (95.6%) | ERS986106 | 3.72E+07 | (95.1%) | ERS986119 | 3.47E+07 | (95.3%) | ERS986114 | 2.11E+07 | (89.7%) | ERS985969 |
| France (Massif Central) - 1 | MC | FRA6 | male | C1 | C12 | 10 | 3.17E+07 | (95.7%) | ERS986062 | 2.48E+07 | (94.2%) | ERS986069 | 3.05E+07 | (95.8%) | ERS986077 | 2.90E+07 | (95.7%) | ERS986085 | 3.84E+07 | (90.5%) | ERS986094 | 3.11E+07 | (94.8%) | ERS986099 | 3.35E+07 | (95.3%) | ERS986107 | 3.56E+07 | (94.8%) | ERS986104 | 3.16E+07 | (95.6%) | ERS986115 | 2.36E+07 | (90.4%) | ERS985954 |
| France (Massif Central) - 1 | MC | FRA7 | male | E1 | E1b | 10 | 3.02E+07 | (95.8%) | ERS986063 | 3.08E+07 | (95.0%) | ERS986070 | 3.09E+07 | (95.8%) | ERS986078 | 3.75E+07 | (95.2%) | ERS986086 | 3.83E+07 | (91.8%) | ERS986095 | 3.30E+07 | (95.3%) | ERS986100 | 3.53E+07 | (95.4%) | ERS986108 | 3.58E+07 | (94.9%) | ERS986089 | 3.11E+07 | (95.1%) | ERS986116 | 2.50E+07 | (90.1%) | ERS985939 |
| France (Massif Central) - 1 | MC | FRA8 | male | F1B | F1B | 8 | 3.08E+07 | (95.6%) | ERS986064 | NA | NA | NA | 3.73E+07 | (95.8%) | ERS986079 | 3.37E+07 | (95.4%) | ERS986087 | 3.37E+07 | (91.9%) | ERS986096 | NA | NA | NA | 3.42E+07 | (95.7%) | ERS986109 | 3.78E+07 | (94.9%) | ERS986074 | 3.16E+07 | (94.8%) | ERS986117 | 3.43E+07 | (87.5%) | ERS986014 |
| Germany (Cologne-Bonn) - 2 | CB | GER1 | male | TP1 | tp1 | 10 | 2.44E+07 | (95.2%) | ERS985899 | 2.51E+07 | (92.3%) | ERS985907 | 3.21E+07 | (92.5%) | ERS985912 | 2.89E+07 | (95.0%) | ERS985920 | 3.38E+07 | (88.0%) | ERS985989 | 2.99E+07 | (91.5%) | ERS985997 | 3.01E+07 | (92.0%) | ERS986004 | 2.34E+07 | (89.4%) | ERS985929 | 3.69E+07 | (92.9%) | ERS986010 | 2.38E+07 | (89.6%) | ERS985937 |
| Germany (Cologne-Bonn) - 2 | CB | GER2 | male | TP121B | tp121 | 9 | 2.74E+07 | (95.1%) | ERS985900 | 2.75E+07 | (90.8%) | ERS985908 | 3.00E+07 | (92.7%) | ERS985913 | 2.38E+07 | (95.4%) | ERS985921 | 7.61E+07 | (92.0%) | ERS986120 | 3.25E+07 | (91.7%) | ERS985998 | NA | NA | NA | 1.97E+07 | (89.2%) | ERS985930 | 3.14E+07 | (91.5%) | ERS986011 | 2.13E+07 | (89.4%) | ERS985938 |
| Germany (Cologne-Bonn) - 2 | CB | GER3 | male | TP17-2 | tp172 | 10 | 2.97E+07 | (91.6%) | ERS985901 | NA | NA | NA | 2.90E+07 | (93.6%) | ERS985914 | 2.68E+07 | (94.5%) | ERS985922 | 5.33E+07 | (94.8%) | ERS986121 | 3.33E+07 | (91.4%) | ERS986000 | 5.09E+07 | (96.1%) | ERS986122 | 2.16E+07 | (92.6%) | ERS985931 | 3.23E+07 | (92.5%) | ERS986012 | 2.28E+07 | (89.0%) | ERS985940 |
| Germany (Cologne-Bonn) - 2 | CB | GER4 | male | TP3-92 | tp3a2 | 10 | 2.97E+07 | (91.1%) | ERS985902 | NA | NA | NA | 3.17E+07 | (92.5%) | ERS985915 | 2.61E+07 | (95.2%) | ERS985923 | 3.73E+07 | (90.8%) | ERS985992 | 3.20E+07 | (90.8%) | ERS986001 | 3.72E+07 | (92.8%) | ERS986006 | 2.08E+07 | (92.6%) | ERS985932 | 3.50E+07 | (92.3%) | ERS986013 | 2.51E+07 | (89.6%) | ERS985941 |
| Germany (Cologne-Bonn) - 2 | CB | GER5 | male | TP4a | tp4a | 8 | 2.63E+07 | (91.9%) | ERS985903 | 2.53E+07 | (92.4%) | ERS985910 | 2.95E+07 | (93.5%) | ERS985916 | 3.19E+07 | (92.6%) | ERS985985 | 3.88E+07 | (89.2%) | ERS985993 | NA | NA | NA | 3.75E+07 | (93.0%) | ERS986007 | 2.11E+07 | (92.3%) | ERS985933 | 2.55E+07 | (93.7%) | ERS985925 | 2.04E+07 | (89.4%) | ERS985942 |
| Germany (Cologne-Bonn) - 2 | CB | GER6 | male | TP51D | tp51 | 9 | 3.01E+07 | (91.4%) | ERS985904 | NA | NA | NA | 3.50E+07 | (93.5%) | ERS985917 | 3.34E+07 | (92.5%) | ERS985986 | 3.21E+07 | (91.3%) | ERS985994 | 3.14E+07 | (92.2%) | ERS986002 | 3.75E+07 | (92.8%) | ERS986008 | 1.90E+07 | (92.2%) | ERS985934 | 2.44E+07 | (92.3%) | ERS985926 | 3.01E+07 | (88.6%) | ERS985943 |
| Germany (Cologne-Bonn) - 2 | CB | GER7 | male | TP7-10F1A2 | tp710 | 8 | 2.85E+07 | (92.0%) | ERS985905 | NA | NA | NA | 2.88E+07 | (96.1%) | ERS985918 | 2.89E+07 | (92.1%) | ERS985987 | 3.67E+07 | (89.2%) | ERS985995 | NA | NA | NA | 3.03E+07 | (93.0%) | ERS986009 | 2.16E+07 | (92.8%) | ERS985935 | 2.08E+07 | (92.0%) | ERS985927 | 2.17E+07 | (86.8%) | ERS985944 |
| Germany (Cologne-Bonn) - 2 | CB | GER8 | male | TP81B | tp81 | 9 | 2.89E+07 | (91.6%) | ERS985906 | 2.62E+07 | (90.7%) | ERS985911 | 2.92E+07 | (96.0%) | ERS985919 | 3.31E+07 | (90.0%) | ERS985988 | 3.47E+07 | (89.0%) | ERS985996 | 3.02E+07 | (90.3%) | ERS986003 | 2.83E+07 | (96.0%) | ERS985924 | 1.79E+07 | (92.8%) | ERS985936 | 2.15E+07 | (88.9%) | ERS985928 | 2.28E+07 | (86.5%) | ERS985999 |
| Iran (Ahvaz) - 4 | IR | IRA1b | male | (AH15)* | 131* | 10 | 1.92E+07 | (93.1%) | ERS985949 | 2.34E+07 | (89.9%) | ERS985958 | 2.53E+07 | (91.2%) | ERS985966 | 2.10E+07 | (93.6%) | ERS985975 | 2.77E+07 | (90.7%) | ERS985983 | 3.17E+07 | (95.2%) | ERS986022 | 3.63E+07 | (95.5%) | ERS986031 | 3.29E+07 | (94.6%) | ERS986043 | 2.75E+07 | (94.5%) | ERS986036 | 2.75E+07 | (90.7%) | ERS986052 |
| Iran (Ahvaz) - 4 | IR | IRA2b | male | (AH23)* | 132* | 10 | 2.29E+07 | (92.4%) | ERS985950 | 2.41E+07 | (91.0%) | ERS985959 | 2.46E+07 | (92.1%) | ERS985967 | 1.99E+07 | (93.8%) | ERS985976 | 3.30E+07 | (92.5%) | ERS986015 | 2.98E+07 | (95.1%) | ERS986023 | 2.42E+07 | (94.9%) | ERS986032 | 3.82E+07 | (95.1%) | ERS986045 | 2.23E+07 | (94.4%) | ERS986037 | 2.26E+07 | (90.5%) | ERS986053 |
| Iran (Ahvaz) - 4 | IR | IRA3b | male | (JR11)* | IR121* | 9 | 2.01E+07 | (90.9%) | ERS985951 | 2.18E+07 | (91.4%) | ERS985960 | 2.43E+07 | (94.0%) | ERS985968 | 2.30E+07 | (93.0%) | ERS985977 | 3.63E+07 | (89.1%) | ERS986016 | 3.12E+07 | (94.7%) | ERS986024 | NA | NA | NA | 3.28E+07 | (93.9%) | ERS986046 | 2.82E+07 | (94.4%) | ERS985909 | 2.56E+07 | (90.4%) | ERS986054 |
| Iran (Ahvaz) - 4 | IR | IRA4b | male | (JR15)* | IR122* | 10 | 2.17E+07 | (91.2%) | ERS985952 | 2.49E+07 | (92.8%) | ERS985961 | 2.28E+07 | (93.8%) | ERS985970 | 2.37E+07 | (93.3%) | ERS985978 | 3.48E+07 | (89.4%) | ERS986017 | 2.65E+07 | (95.3%) | ERS986025 | 3.39E+07 | (96.3%) | ERS986033 | 3.81E+07 | (94.8%) | ERS986047 | 2.87E+07 | (94.3%) | ERS986038 | 3.27E+07 | (92.2%) | ERS986055 |
| Iran (Ahvaz) - 4 | IR | IRA5 | male | JR2-F1C | 02FC_1 | 10 | 2.05E+07 | (92.6%) | ERS985945 | 2.00E+07 | (92.2%) | ERS985953 | 2.63E+07 | (93.9%) | ERS985962 | 2.20E+07 | (93.5%) | ERS985971 | 2.16E+07 | (89.1%) | ERS985979 | 2.64E+07 | (94.9%) | ERS986018 | 3.38E+07 | (94.9%) | ERS986026 | 3.30E+07 | (94.3%) | ERS986039 | 2.87E+07 | (93.2%) | ERS986034 | 2.63E+07 | (91.0%) | ERS986048 |
| Iran (Ahvaz) - 4 | IR | IRA6 | male | JR5-F1C | 05F1C1 | 9 | 2.31E+07 | (92.1%) | ERS985946 | 2.64E+07 | (91.0%) | ERS985955 | 2.59E+07 | (92.0%) | ERS985963 | 2.10E+07 | (93.5%) | ERS985972 | 2.42E+07 | (88.0%) | ERS985980 | 2.80E+07 | (95.2%) | ERS986019 | 2.94E+07 | (94.7%) | ERS986027 | 3.85E+07 | (93.5%) | ERS986040 | NA | NA | NA | 3.08E+07 | (90.2%) | ERS986049 |
| Iran (Ahvaz) - 4 | IR | IRA7 | male | JR7-F1C | 07F1C1 | 9 | 2.13E+07 | (92.5%) | ERS985947 | 2.00E+07 | (93.2%) | ERS985956 | 2.17E+07 | (94.0%) | ERS985964 | 2.23E+07 | (93.2%) | ERS985973 | 2.76E+07 | (93.1%) | ERS985981 | 2.37E+07 | (94.8%) | ERS986020 | 3.01E+07 | (94.9%) | ERS986028 | 3.93E+07 | (95.1%) | ERS986041 | NA | NA | NA | 2.79E+07 | (90.8%) | ERS986050 |
| Iran (Ahvaz) - 4 | IR | IRA8 | male | JR8-F1A | 08F1_A | 10 | 2.22E+07 | (92.7%) | ERS985948 | 2.27E+07 | (90.6%) | ERS985957 | 2.60E+07 | (94.1%) | ERS985965 | 2.36E+07 | (93.7%) | ERS985974 | 2.54E+07 | (93.5%) | ERS985982 | 2.94E+07 | (95.1%) | ERS986021 | 2.84E+07 | (94.9%) | ERS986030 | 4.06E+07 | (95.1%) | ERS986042 | 2.69E+07 | (95.1%) | ERS986035 | 2.42E+07 | (91.3%) | ERS986051 |
*these animals do not correspond to the animal used for genome sequencing, but are related to them. 131 and 132, as well as IR121 and IR122 are brother pairs.