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Table 2 Summary of major candidate genes related to meat quality characteristics and feed intake in Sanga cattle population detected by XP-EHH and XP-CLR statistics (see Additional file 1: Table S1 and Additional file 2: Table S2)

From: Whole genome scan reveals the genetic signature of African Ankole cattle breed and potential for higher quality beef

Candidate genes Chr. Window (Mbp) XP-CLR Max XP-EHH XP-EHH P-value Tajima’s D Weighted FST Species, trait and reference
PIK3CB 1 131.50–131.55 121.48 2.21 1.69.E-03 −1.06 0.27 RFI [79]a
MRAS 1 131.73–131.78 112.25 - - −1.87 0.16 FCE [79]a
PLA2G2A 2 133.28–133.33 117.48 - - 0.70 0.27 IMF [58]b, [59]c
CAPZB 2 133.78–133.83 142.50 - - −0.47 0.22 Tenderness [32]c
COL9A2 3 106.38–106.43 107.14 1.93 5.95.E-03 −1.30 0.15 Tenderness [46]b
LIMA 5 29.78–29.83 117.18 - - −0.33 0.39 Tenderness [45]b
SLC48A1 5 32.63–32.68 101.45 1.80 6.96.E-03 −0.35 0.26 Meat color [68]d
MB 5 74.18–74.23 129.86 1.96 5.00.E-03 −0.98 0.20 Meat color [41, 67]d
APOL6 5 74.20–74.25 - 2.00 5.00.E-03 −0.91 0.13 IMF [65]d
ATP8A1 6 62.90–62.95 264.27 2.02 4.00.E-03 −1.39 0.36 FCE [76]c
PDGFRA 6 71.35–71.40 408.60 2.61 3.00.E-04 −2.29 0.45 Tenderness [53]b
MAP3K5 9 75.55–75.60 147.37 2.09 3.00.E-03 −0.23 0.15 RFI [75]b
PARK2 9 99.13–99.18 132.40 2.34 2.36.E-03 −0.27 0.30 IMF [62]a
PKM2 10 18.95–19.00 - 1.97 2.00.E-03 −1.18 0.25 Tenderness [32]d, [52]a; IMF [64]b; Drip loss [70, 71]b
ZNF410 10 85.68–85.73 165.86 2.18 1.94.E-03 −0.67 0.28 Tenderness [32]c, [35]b
AHSA1 10 89.70–89.75 - 2.23 2.00.E-03 −1.47 0.31 IMF [66]c
MAP4K4 11 6.65–6.70 - 1.85 9.00.E-03 0.72 0.08 Drip loss [70, 71]b
NFATC2 13 80.00–80.05 - 2.01 4.24.E-03 2.53 0.25 Tenderness [55]d
WWP1 14 78.63–78.68 133.90 - - 1.03 0.18 Tenderness [50]d
OR2D2, OR10A4, OR2D3 15 46.40–46.45 - 2.07 3.45.E-03 2.61 0.18 Feed intake [78]d; [77]b
MAP2K3 19 35.85–35.90 - 1.93 4.00.E-03 −0.20 0.16 IMF [49]b
PLCD3 19 45.40–45.45 - 1.89 5.00.E-03 −0.18 0.03 IMF [56]d
TIMP2 19 54.10–54.15 - 1.88 7.46.E-03 −0.73 0.18 RFI [73]c
PLCD1 22 11.45–11.50 195.30 2.12 3.00.E-03 −1.43 0.14 IMF [56]d
ROCK1 24 35.48–35.53 130.40 2.22 1.61.E-03 0.93 0.29 Tenderness [48]a; IMF [61]b
PRKG1 26 7.43–7.48 166.61 - - −1.27 0.13 Tenderness [54]d; IMF [36]b; RFI [72]c
  1. Note: Chr. Chromosome, Window: start and end positions of the gene region; RFI residual feed intake, FCE feed conversion efficiency, IMF intramuscular fat; Superscripts in the Species, Trait and Reference column indicate the species that the trait has been previously reported for as achicken, bpork, cbeef, dgeneral (not for a specific species)