Supplemental Table 1. Identification of Putative Conserved Syntenies Between the Catfish

Supplemental Table 1. Identification of putative conserved syntenies between the catfish and medaka genomes. Marker loci were named with prefix AUEST forgene-associated microsatellites, and AUSNP for gene-associated single nucleotide polymorphism (SNP). GID is GenBank identifier for the gene (accession numbers for ESTs); for SNPs, the contig number from which the SNP was identified is given. ENSEMBL ID column is the sequence ID of the medaka genome sequence homologous to the specific locus. E-value column describes the similarity between the catfish gene and the medaka gene, but is encoded: e.g., 0.53 = e-53; 0.96=e-96; 1=e-100 or less,etc.

Locus / GID/Contig / ENSEMBLEID / Chromosome / Chromosomelocation(bp) / E-value / LinkageGroup / MapLocation(cM)
AUEST0074 / BM028055 / ENSORLT00000011585 / 1 / 26,326,052 / 0.53 / 12 / 100.4
AUEST0824 / BE468808 / ENSORLT00000012977 / 1 / 28,022,237 / 0.96 / 12 / 3.2
AUSNP000042 / Ctg_2754 / ENSORLT00000004676 / 1 / 12,288,056 / 1 / 25 / 14.1
AUSNP000065 / Ctg_3707 / ENSORLT00000015866 / 1 / 32,015,154 / 1 / 27 / 24.9
AUSNP000047 / Ctg_3078 / ENSORLT00000010364 / 1 / 24,703,285 / 1 / 29 / 131.2
AUEST0067 / BM497044 / ENSORLT00000000549 / 2 / 15,449,519 / 0.29 / 4 / 94.1
AUSNP000007 / Ctg_4213 / ENSORLT00000004125 / 2 / 22,095,433 / 0.8 / 6 / 0.0
AUEST0132 / BM424646 / ENSORLT00000000658 / 2 / 15,910,158 / 0.17 / 11 / 40.6
AUEST0451 / CK424102 / ENSORLT00000003476 / 2 / 21,653,999 / 0.33 / 20 / 48.7
AUSNP000006 / Ctg_2885 / ENSORLT00000002311 / 2 / 18,891,955 / 0.34 / 25 / 9.4
AUSNP000058 / Ctg_3435 / ENSORLT00000004125 / 2 / 22,095,433 / 0.95 / 25 / 26.9
AUSNP000060 / Ctg_3638 / ENSORLT00000004334 / 2 / 22,798,488 / 1 / 27 / 23.4
AUSNP000036 / Ctg_2405 / ENSORLT00000010445 / 3 / 20,046,916 / 0.94 / 16 / 25.4
AUEST0436 / CK414043 / ENSORLT00000017521 / 3 / 29,572,055 / 0.37 / 20 / 0.0
AUEST0675 / CK413442 / ENSORLT00000017521 / 3 / 29,572,055 / 0.15 / 20 / 3.1
AUEST0769 / BM496763 / ENSORLT00000001559 / 3 / 8,270,130 / 0.18 / 20 / 23.8
AUEST0918 / BM439064 / ENSORLT00000000294 / 3 / 3,408,619 / 1 / 21 / 13.6
AUSNP000057 / Ctg_3367 / ENSORLT00000015832 / 3 / 25,993,218 / 0.1 / 27 / 54.2
AUEST0805 / CB936968 / ENSORLT00000011526 / 4 / 15,784,335 / 1 / 8 / 36.0
AUEST0266 / CF262406 / ENSORLT00000000580 / 4 / 1,095,237 / 0.25 / 18 / 71.9
AUSNP000055 / Ctg_3226 / ENSORLT00000017642 / 4 / 25,888,078 / 1 / 27 / 47.2
AUSNP000079 / Ctg_5104 / ENSORLT00000015521 / 4 / 21,816,250 / 0.95 / 27 / 47.2
AUSNP000014 / Ctg_0865 / ENSORLT00000010343 / 4 / 14,423,787 / 1 / 27 / 47.4
AUEST0373 / CF262754 / ENSORLT00000009807 / 4 / 14,007,268 / 0.12 / 27 / 47.7
AUEST0417 / BM494174 / ENSORLT00000006112 / 4 / 8,350,454 / 1 / 27 / 49.9
AUEST0066 / BM027884 / ENSORLT00000009374 / 5 / 13,871,675 / 0.88 / 3 / 70.9
AUSNP000032 / Ctg_1974 / ENSORLT00000020177 / 5 / 29,806,257 / 0.36 / 8 / 24.4
AUEST0270 / CF262276 / ENSORLT00000010339 / 5 / 15,802,540 / 0.19 / 12 / 82.6
AUEST0767 / BM497034 / ENSORLT00000002041 / 5 / 2,437,952 / 0.35 / 28 / 0.0
AUEST0017 / BE468998 / ENSORLT00000015958 / 5 / 25,207,123 / 0.19 / 15 / 21.0
AUSNP000088 / Ctg_1769 / ENSORLT00000003758 / 5 / 4,675,568 / 0.75 / 15 / 28.7
AUEST0010 / BE469169 / ENSORLT00000001655 / 5 / 1,924,452 / 0.67 / 15 / 32.4
AUSNP000022 / Ctg_1221 / ENSORLT00000013330 / 5 / 19,295,343 / 1 / 28 / 64.1
AUEST0043 / AF063836 / ENSORLT00000009022 / 6 / 11,641,818 / 1 / 4 / 36.6
AUEST0288 / CB937073 / ENSORLT00000019349 / 6 / 23,161,455 / 0.66 / 21 / 61.5
AUEST0305 / CF263742 / ENSORLT00000012584 / 6 / 15,618,010 / 0.1 / 21 / 54.8
AUEST0149 / BM497130 / ENSORLT00000004841 / 6 / 8,465,546 / 0.29 / 22 / 31.6
AUEST0944 / BM495547 / ENSORLT00000001616 / 6 / 2,800,041 / 0.14 / 23 / 29.1
AUEST1013 / CK412258 / ENSORLT00000015609 / 6 / 19,129,435 / 1 / 27 / 68.9
AUEST0062 / BE469322 / ENSORLT00000018992 / 6 / 22,813,134 / 0.64 / 29 / 92.6
AUSNP000018 / Ctg_1045 / ENSORLT00000001178 / 6 / 1,803,554 / 1 / 29 / 47.4
AUSNP000043 / Ctg_2875 / ENSORLT00000001410 / 6 / 2,108,795 / 0.76 / 29 / 96.1
AUEST0027 / BM438274 / ENSORLT00000018840 / 7 / 22,319,520 / 0.25 / 8 / 24.6
AUSNP000083 / Ctg_0030 / ENSORLT00000013289 / 7 / 17,099,102 / 1 / 8 / 21.3
AUEST0387 / CF262146 / ENSORLT00000014092 / 7 / 17,703,942 / 0.14 / 16 / 50.7
AUSNP000004 / Ctg_1691 / ENSORLT00000007069 / 7 / 10,558,534 / 1 / 17 / 2.3
AUEST0059 / BE469698 / ENSORLT00000020689 / 7 / 26,080,132 / 0.13 / 28 / 42.4
AUEST0685 / CK413603 / ENSORLT00000020064 / 7 / 24,329,501 / 1 / 28 / 42.5
AUSNP000024 / Ctg_1260 / ENSORLT00000001726 / 7 / 3,311,099 / 1 / 28 / 60.9
AUSNP000026 / Ctg_1273 / ENSORLT00000006452 / 8 / 8,310,196 / 0.2 / 13 / 54.3
AUEST0151 / BM027834 / ENSORLT00000019532 / 8 / 21,717,260 / 0.67 / 25 / 35.8
AUEST0929 / BM494953 / ENSORLT00000020313 / 8 / 21,742,619 / 0.92 / 25 / 39.7
AUSNP000023 / Ctg_1244 / ENSORLT00000020347 / 8 / 21,770,034 / 0.31 / 25 / 4.9
AUEST0838 / BE469511 / ENSORLT00000003920 / 8 / 5,493,523 / 1 / 26 / 7.4
AUEST0060 / BE468993 / ENSORLT00000005642 / 8 / 6,797,102 / 0.15 / 28 / 36.5
AUEST0376 / CF262727 / ENSORLT00000005484 / 9 / 8,316,827 / 0.34 / 8 / 17.2
AUEST0945 / BM495553 / ENSORLT00000006596 / 9 / 10,154,987 / 0.22 / 8 / 28.8
AUEST0679 / CK413500 / ENSORLT00000018998 / 9 / 23,117,841 / 0.41 / 16 / 73.1
AUEST0716 / CK413890 / ENSORLT00000007869 / 9 / 11,690,746 / 0.2 / 16 / 10.8
AUSNP000069 / Ctg_4051 / ENSORLT00000007849 / 9 / 11,635,143 / 1 / 16 / 5.9
AUSNP000019 / Ctg_1050 / ENSORLT00000006652 / 10 / 13,039,040 / 1 / 2 / 52.5
AUSNP000029 / Ctg_1579 / ENSORLT00000010010 / 10 / 18,159,765 / 0.12 / 2 / 52.5
AUEST0302 / CF261566 / ENSORLT00000008879 / 10 / 15,955,442 / 0.1 / 4 / 70.1
AUSNP000068 / Ctg_3792 / ENSORLT00000008884 / 10 / 15,968,262 / 0.75 / 4 / 70.4
AUSNP000081 / Ctg_5550 / ENSORLT00000001036 / 10 / 3,723,391 / 0.6 / 10 / 9.4
AUEST0368 / CF262908 / ENSORLT00000010762 / 10 / 21,077,530 / 0.81 / 29 / 44.6
AUSNP000016 / Ctg_0878 / ENSORLT00000006652 / 10 / 13,039,040 / 1 / 29 / 0.0
AUSNP000035 / Ctg_2393 / ENSORLT00000014238 / 10 / 25,898,687 / 1 / 29 / 51.5
AUSNP000071 / Ctg_4192 / ENSORLT00000004291 / 10 / 10,123,093 / 1 / 29 / 36.2
AUSNP000073 / Ctg_4466 / ENSORLT00000001553 / 10 / 5,813,112 / 0.36 / 29 / 47.4
AUSNP000010 / Ctg_0286 / ENSORLT00000009507 / 11 / 16,668,308 / 1 / 13 / 54.0
AUEST0961 / BM496016 / ENSORLT00000013749 / 11 / 21,240,560 / 0.23 / 25 / 29.6
AUSNP000049 / Ctg_3094 / ENSORLT00000013659 / 11 / 21,206,711 / 1 / 25 / 32.5
AUEST0635 / BM496516 / ENSORLT00000005251 / 12 / 7,241,364 / 1 / 2 / 100.2
AUSNP000046 / Ctg_3032 / ENSORLT00000018090 / 12 / 26,977,191 / 1 / 2 / 63.8
AUSNP000053 / Ctg_3179 / ENSORLT00000016510 / 12 / 24,264,196 / 1 / 2 / 111.3
AUEST0472 / BM496853 / ENSORLT00000010644 / 13 / 17,434,561 / 0.46 / 6 / 71.6
AUSNP000078 / Ctg_5097 / ENSORLT00000000836 / 13 / 1,587,796 / 1 / 6 / 15.1
AUSNP000082 / Ctg_0743 / ENSORLT00000009340 / 13 / 14,912,064 / 1 / 10 / 12.1
AUEST0242 / CF261514 / ENSORLT00000013902 / 13 / 21,228,423 / 0.45 / 13 / 0.0
AUEST0078 / BM495047 / ENSORLT00000011332 / 13 / 18,121,212 / 0.3 / 14 / 70.6
AUEST0369 / CF262905 / ENSORLT00000008937 / 13 / 14,345,944 / 0.1 / 14 / 40.0
AUEST0052 / BM495288 / ENSORLT00000005747 / 13 / 9,496,970 / 0.57 / 21 / 47.2
AUSNP000061 / Ctg_3648 / ENSORLT00000009437 / 14 / 15,461,711 / 0.62 / 1 / 60.3
AUSNP000021 / Ctg_1207 / ENSORLT00000016163 / 14 / 24,043,023 / 0.9 / 2 / 52.5
AUEST0286L / CF262064 / ENSORLT00000013747 / 14 / 20,849,675 / 0.11 / 10 / 27.1
AUEST0516 / CK412782 / ENSORLT00000010012 / 14 / 16,195,299 / 0.31 / 10 / 10.9
AUEST0537 / CK412946 / ENSORLT00000014387 / 14 / 21,522,639 / 0.36 / 10 / 0.0
AUSNP000087 / Ctg_1741 / ENSORLT00000019398 / 14 / 32,776,182 / 0.78 / 10 / 10.3
AUEST0762 / CB938501 / ENSORLT00000008965 / 14 / 15,107,476 / 0.07 / 10 / 11.3
AUSNP000003 / Ctg_0621 / ENSORLT00000017742 / 14 / 28,486,087 / 1 / 15 / 17.4
AUEST0720 / CK413936 / ENSORLT00000006110 / 14 / 12,101,049 / 0.06 / 27 / 53.0
AUSNP000040 / Ctg_2695 / ENSORLT00000014321 / 15 / 26,006,545 / 0.48 / 3 / 79.3
AUEST0220U / CB937920 / ENSORLT00000006100 / 16 / 6,951,214 / 0.51 / 11 / 47.9
AUEST0936 / BM495325 / ENSORLT00000016576 / 16 / 17,943,003 / 0.36 / 11 / 3.7
AUSNP000038 / Ctg_2583 / ENSORLT00000017534 / 16 / 19,390,511 / 0.64 / 11 / 18.9
AUSNP000052 / Ctg_3158 / ENSORLT00000017037 / 16 / 18,745,976 / 0.86 / 11 / 19.9
AUEST0032 / BM424544 / ENSORLT00000020401 / 16 / 26,892,599 / 0.31 / 19 / 40.1
AUSNP000066 / Ctg_3768 / ENSORLT00000010656 / 16 / 14,020,716 / 0.75 / 19 / 18.1
AUEST0277Mb / CF261698 / ENSORLT00000003840 / 17 / 3,356,105 / 0.38 / 4 / 0.0
AUEST0359 / BE468387 / ENSORLT00000021680 / 17 / 27,856,901 / 0.15 / 5 / 8.2
AUEST0106 / BM495226 / ENSORLT00000005939 / 17 / 5,655,047 / 0.16 / 6 / 79.2
AUEST0168 / BM438559 / ENSORLT00000008457 / 17 / 10,554,209 / 0.13 / 6 / 57.3
AUEST0512 / CK412743 / ENSORLT00000020703 / 17 / 25,542,340 / 0.07 / 6 / 82.6
AUEST0290 / CB937768 / ENSORLT00000003575 / 17 / 3,137,059 / 0.15 / 16 / 22.2
AUEST0023L / BM496054 / ENSORLT00000019768 / 17 / 23,784,254 / 0.4 / 19 / 13.8
AUEST0696 / CK413701 / ENSORLT00000014516 / 17 / 17,513,198 / 0.43 / 27 / 37.4
AUEST0377 / CF262687 / ENSORLT00000008674 / 19 / 7,207,031 / 0.98 / 2 / 115.3
AUEST0002 / BM438455 / ENSORLT00000017697 / 19 / 21,096,304 / 0.23 / 11 / 27.8
AUEST0671 / CK413397 / ENSORLT00000007229 / 19 / 6,388,937 / 0.66 / 23 / 37.7
AUEST1014 / CK412309 / ENSORLT00000006558 / 19 / 5,356,049 / 0.16 / 23 / 26.5
AUSNP000033 / Ctg_2272 / ENSORLT00000011505 / 19 / 10,010,599 / 0.67 / 23 / 11.6
AUSNP000009 / Ctg_0027 / ENSORLT00000014277 / 20 / 18,863,658 / 0.25 / 5 / 0.5
AUEST0866U / BM029596 / ENSORLT00000005944 / 20 / 6,247,178 / 0.08 / 13 / 55.2
AUEST0154 / BE469707 / ENSORLT00000009052 / 20 / 12,956,268 / 0.21 / 13 / 11.3
AUEST0814 / CB937452 / ENSORLT00000010765 / 20 / 15,322,614 / 0.13 / 19 / 24.8
AUEST0051 / BM425105 / ENSORLT00000015628 / 21 / 11,848,244 / 0.19 / 9 / 3.9
AUEST0100 / AF396747 / ENSORLT00000018870 / 21 / 18,492,010 / 1 / 9 / 3.8
AUEST0137 / BM495657 / ENSORLT00000022625 / 21 / 28,430,170 / 0.22 / 9 / 3.7
AUSNP000017 / Ctg_0881 / ENSORLT00000013388 / 21 / 8,284,850 / 1 / 9 / 0.0
AUSNP000030 / Ctg_1591 / ENSORLT00000014253 / 21 / 9,904,662 / 1 / 9 / 2.7
AUEST0835 / BE469419 / ENSORLT00000017630 / 21 / 15,952,756 / 1 / 25 / 15.5
AUEST0265 / CF262438 / ENSORLT00000011507 / 22 / 763,977 / 0.74 / 3 / 0.0
AUEST0758 / CB938230 / ENSORLT00000011624 / 22 / 801,771 / 0.94 / 3 / 13.0
AUEST0476 / BM496810 / ENSORLT00000012522 / 22 / 1,416,393 / 1 / 7 / 30.1
AUSNP000034 / Ctg_2379 / ENSORLT00000018302 / 22 / 9,520,404 / 1 / 7 / 9.6
AUEST0608 / BM496609 / ENSORLT00000020144 / 23 / 18,571,065 / 0.33 / 20 / 39.8
AUEST0704 / CK413527 / ENSORLT00000018080 / 23 / 14,589,486 / 0.3 / 22 / 0.0
AUEST0406 / BM439180 / ENSORLT00000019180 / 24 / 9,787,374 / 0.52 / 26 / 38.4
AUEST0126 / BM028849 / ENSORLT00000017399 / 24 / 7,466,585 / 0.25 / 28 / 88.2
AUEST0509 / CK412708 / ENSORLT00000020768 / 24 / 14,263,646 / 0.4 / 28 / 76.8
AUEST0771 / BM496501 / ENSORLT00000025668 / Unassigned / 1,994,324 / 0.18 / 6 / 18.2
AUEST0064 / AF410785 / ENSORLT00000024464 / Unassigned / 16,497 / 0.17 / 7 / 41.6
AUSNP000015 / Ctg_0867 / ENSORLT00000024666 / Unassigned / 9,777 / 1 / 9 / 3.8
AUEST0526 / CK412855 / ENSORLT00000023475 / Unassigned / 91,772 / 0.13 / 10 / 37.9
AUSNP000093 / Ctg_3139 / ENSORLT00000025282 / Unassigned / 538,102 / 0.86 / 12 / 7.5
AUEST0210 / CB939628 / ENSORLT00000023142 / Unassigned / 226,305 / 0.67 / 15 / 0.0
AUSNP000085 / Ctg_1136 / ENSORLT00000024154 / Unassigned / 1,196,616 / 0.43 / 15 / 33.4
AUEST0678 / CK413486 / ENSORLT00000023321 / Unassigned / 26,652 / 1 / 21 / 62.8
AUSNP000072 / Ctg_4221 / ENSORLT00000024801 / Unassigned / 11,311 / 1 / 26 / 21.9
AUEST0086 / BM028141 / ENSORLT00000024620 / Unassigned / 4,132 / 0.51 / 27 / 25.0
AUEST0152 / BE212675 / ENSORLT00000022994 / Unassigned / 134,702 / 0.67 / 27 / 0.0
AUSNP000048 / Ctg_3079 / ENSORLT00000024893 / Unassigned / 130 / 1 / 28 / 2.8
AUSNP000011 / Ctg_0381 / ENSORLT00000023197 / Unassigned / 579,291 / 1 / 29 / 96.1