Table 1 Assignment of Chinook genetic linkage groups to chromosomes
ChromosomeArmCK LGMarkersBAC CloneRT ChromosomeRT LGa
Ots11pCK13BHMS577102N02aOmy4p24p
1qCarbE186E19oOmy2330
Ots22pCK12OMM1300318G19sOmy 1729q
2qMHC24C02oOmy 1729p
Ots33pCK05Oneu10218G23aOmy3p31p
Ots44pCK8OMM1204113I17sOmy 6p10p
4qB6B6oOmy6q10q
Ots55pCK11TRSHA354I19sOmy8p23p
5qOMM1195107J7sOmy5q8q
Ots66qCK17FGF6122J17oOmy1q6q
Ots77pCK16CD8317c24oOmy7p12p
7qNrampB146I11oOmy7q12q
Ots88pCK14G9G9oOmy254
8qTCRb270C12oOmy2925
Ots99qCK02GH1167I21oOmy12q9q
Ots1010pCK20CD4275D24sOmy9p21p
10qOMM1295146HsOmy8q23q
Ots1111pCK15OMM1134a271M12sOmy19p14p
11qBHMS281198E23aOmy19q14q
Ots1212pCK18OMM3042C9oOmy11q19p
12pOMM3020F1oOmy11p19p
12qB6aB6oOmy2618
Ots1313pCK7MHCIA24K3oOmy18q16q
13qSomatolactin193J21oOmy2711
Ots1414qCK10Omi66366K10oOmy2426
Ots1515pCK23LDHB176H21sOmy21p15p
Ots1616qCK04OMM1145520I2sOmy9q21
Ots1717qCKSexOmy7INRA197M11sOmy15q7q
Ots18CK33Ssa43322O19aOmy4q24q
Ots19CK22MetB127C24oOm2q27q
Ots20CK28Ssa288023aOmy5p8p
Ots21CK09BHMS20626A22aOmy14q3q
Ots22Ck34OMM1340277k4oOmy16q22q
Ots23Ck25TAP134E19oOmy2p27p
Ots24CK27OMM516225G06oOmy16p22p
Ots25CK06OMM119933GD8oOmy20q17q
Ots26CK21OMM1010231J20sOmy225
Ots27Ck31OMM3006C11oOmy132q
Ots28CK24OMM1020239K12sOmy2813
Ots29Ck03OMM1087340I3sOmy15p7p
Ots30CK29OMM1348117A19sOmy10p20p
Ots31CK26MHC1B20C13oOmy14p3p
Ots32CK30Omy27DU118G14oOmy13p2p
Ots33CK19SCAR163171H7sSEX1
Ots34CK32OMM1134a271M12s10q20q
  • Chromosomes are listed from the largest to the smallest, with Ots1–16 being metacentric (bi-armed) chromosomes and Ots 17–34 being acrocentric (uni-armed) chromosomes. Linkage groups correspond to those on the genetic map in the companion article (Naish et al. 2013). In the future, the linkage groups will be renamed to correspond to the chromosome numbers. B6 was a random clone isolated from the RT library, which goes to two telomeres. Ots 18–34 are single-armed chromosomes. a, Atlantic salmon library (CHORIO); o, Oregon State University BAC library; s, Swanson BAC library; p, short arm of the metacentric (bi-armed) chromosomes; q, long arm of the metacentric (bi-centric) chromosomes.

  • a The rainbow trout LGs were used before the genetic map was connected to the chromosomes. In the recent maps (Rexroad et al. 2008; Palti et al. 2004; Phillips et al. 2009), the linkage groups are numbered the same as the chromosomes. The p and q include Ots1–Ots16 for Chinook salmon and Omy1–Omy22 for rainbow trout. Chinook chromosomes Ots17–Ots34 and rainbow trout chromosomes Omy23–Omy30 are acrocentric single-armed chromosomes. o=OSU library, s=Swanson library, and a=Atlantic salmon CHORIO library. The BACs from the “a” library were previously used as probes on rainbow trout chromosomes.