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Table 2 Comparison between cloning and RSCA in 24 individuals

From: Genotyping of black grouse MHC class II B using reference Strand-Mediated Conformational Analysis (RSCA)

  Cloning    RSCA  
Individual N clones Alleles by seq N alleles RSCA peaks N alleles
D320 17 1,6,7, 3 1,6,7 3
H070 16 1,5,6 3 1,5,9,11,23 5
H070.3 23 1,3,6,9 4 1,3,6,9 4
H070.4 17 6,9 2 1,2,6,7,9 5
D375 16 1,5 2 1,5 2
H071 20 1,2,4,5 4 1,2,3,4,5,18, 6
H071.2 19 1,5 2 1,5 2
H071.3 20 1,2,4,5 4 1,4,5 3
H071.7 17 1,2,4,5 4 1,4,5 3
D476 17 1,3,5,9 4 1,2,3,5 4
D870 26 1,2,3,4 4 1,2,3,4,11 5
H904 16 1,5 2 1,5 2
D115804 16 1,4 2 1,4 2
H369 21 1,2,5 3 1,2,4,5 4
D249 20 6,11 2 1,2,6,11,23 5
H393 20 1,4,5,6, 4 4,5,6 3
Ref4 32 9,13,18 3 9 1
Ref24 28 22 1 1,9,22 3
Ref25 33 5,22 2 1,5,22 3
Ref26 27 1,5,22 3 1,5,22 3
Ref30 35 5,7,9,16 4 1,5,7,16 4
Ne36 17 1,22, 2 1 1
D248 33 4,6,7,9 4 1,9 2
10222 31 5,14,22 3 5 1
Sum alleles    71   76
Mean alleles    2.96   3.17
  1. The two methods of cloning/sequencing and RSCA for scoring MHC class II B in black were compared. The table shows the different alleles "Alleles by seq" and number of alleles per individual "N alleles". The numbers below the columns named "Alleles by seq" refers to confirmed Tete BLB alleles. "N clones" refers to the number of clones sequenced per individual. Black grouse named "Ref" where sampled in England, "Ne36" from Netherlands, and had their DNA extracted from moulted feathers. Individual 10222 was sampled in Norway and the DNA was extracted from muscle. For the remaining (Finnish) samples, DNA was extracted from blood. 71 alleles were found by cloning and 76 by RSCA. 2.96 alleles (SD 0.95) were obtained in cloning, and 3.17 alleles (SD 1.40) in RSCA.