Table 1.
Identified SCR classified in three groups: (A) specific to Sasi Ardi (SAS) sheep based on the outliers for Z(Hp) and Z(Dp) distribution, (B) common to the two Latxa populations (LAS and LAN) based on the outliers for Z(Hp) and Z(Dp) distribution, and (C) based on the outliers for Z(Fstp) distribution when comparing both Latxa sheep populations (LAS vs. LAN)
| Group | SCR | Chr | Start (kb) | End (kb) | Number of genes | Candidate genes and selected traitsa |
|---|---|---|---|---|---|---|
| A | SCR1 | 2 | 219,400 | 219,650 | 14 | SLC11A1 (immunity) |
| SCR2 | 3 | 182,650 | 183,050 | 5 | ||
| SCR3 | 4 | 35,150 | 35,350 | 2 | ||
| SCR4 | 4 | 63,050 | 63,250 | 3 | BBS9 (metabolism) | |
| SCR5 | 6 | 24,650 | 24,950 | 7 | H2AFZ (reproduction) | |
| SCR6 | 6 | 44,750 | 45,000 | 7 | ||
| SCR7 | 6 | 48,300 | 48,500 | 3 | ||
| SCR8 | 7 | 42,000 | 42,250 | 5 | NID2 (reproduction) | |
| SCR9 | 8 | 7950 | 8300 | 0 | ||
| SCR10 | 8 | 31,900 | 32,250 | 4 | ||
| SCR11 | 8 | 90,100 | 90,300 | 6 | ||
| SCR12 | 11 | 18,300 | 18,550 | 5 | ||
| SCR13 | 19 | 29,600 | 29,800 | 1 | ||
| SCR14 | 20 | 15,050 | 15,300 | 11 | TREM1 and TREM2 (immunity) | |
| SCR15 | 22 | 22,050 | 22,250 | 15 | NFKB2 (immunity), LDB1 (metabolism), ELOVL3 (metabolism) | |
| SCR16 | 24 | 10,250 | 10,500 | 10 | ||
| B | SCR17 | 1 | 234,800 | 23,5000 | 8 | GPR171 (feeding and metabolism) |
| SCR18 | 2 | 115,000 | 115,200 | 0 | ||
| SCR19 | 3 | 124,800 | 125,000 | 1 | KITLG (pigmentation/reproduction/milk production) | |
| SCR20b | 6 | 36,450 | 38,400 | 19 | ABCG2, SPP1, LAP3, NCAPG, and MEPE (milk production), NCAPG and LCORL (body size) | |
| SCR21 | 7 | 72,550 | 72,600 | 7 | ||
| SCR22 | 18 | 23,600 | 23,850 | 3 | ||
| SCR23 | 19 | 43,300 | 43,500 | 5 | ||
| SCR24 | 24 | 34,650 | 34,800 | 6 | SH2B2 (body size) | |
| C | SCR25 | 2 | 202,050 | 202,350 | 12 | BZW1 (reproduction) |
| SCR26 | 8 | 75,350 | 75,550 | 1 | ESR1 (reproduction) | |
| SCR27 | 11 | 18,350 | 18,550 | 5 | ||
| SCR28 | 13 | 350 | 550 | 0 | ||
| SCR29 | 13 | 58,750 | 58,950 | 14 | ||
| SCR30 | 15 | 46,150 | 46,350 | 20 | OR56A1, OR52W1, OR52B2, OR56B4, OR56A3, CNGA4 (scrapie) | |
| SCR31 | 16 | 9050 | 9350 | 6 | ZNF366 (reproduction) | |
| SCR32 | 22 | 29,050 | 29,250 | 2 |
SCR selected candidate regions; chr chromosome number
aSCR were extended 100 Kb up- and downstream for gene annotation
bThree continuous SCR regions on OAR6 were merged: 36,450,000 bp to 37,000,000 bp, 37,050,000 bp to 38,100,000 bp, and 38,200,000 bp to 38,400,000 bp