Lbn3a^SM/J
QTL Variant Detail

Summary

• QTL variant: Lbn3a^SM/J
• Name: long bones 3a; SM/J
• MGI ID: MGI:3847688
• QTL: Lbn3a Location: unknown Genetic Position: Chr3, Syntenic

Variant origin

• Strain of Specimen: SM/J

Variant description

• Allele Type: QTL

Notes

Mapping and Phenotype information for this QTL, its variants and associated markers

J:147462

Advanced intercross lines derived from LG/J and SM/J parental inbred strains at the F9 (n=150) and F10 (n=1305) generations were used to confirm and refine previously identified QTL (from F2-F3 generations) for long bone traits and identify novel geneticloci and interacting QTL. Animals were phenotyped between 12 and 40 weeks of age and genotyped at 1470 polymorphic SNP loci. The average distance between markers is 1.66 Mb. Long bone measurements were taken for the right-side tibia, femur, humerus and ulna. Eighty-one single-trait QTL were detected in this study, which includes 27 previously identified long bone loci. Thirteen novel pleiotropic loci were detected.

On mouse Chromosome 3, previously identified QTL Lbn3 was refined into three separate loci. Lbn3a (long bones 3a) mapped to 30 cM near rs13477144 in linkage to femur length (LPR=5.95). Pleiotropic QTL Lbn3b (long bones 3b) mapped to 48 cM near rs13477279 in linkage to humerus (LPR=7.85), femur (LPR=6.71), ulna (LPR=6.9) and tibia (LPR=4.15) lengths with significantly greater linkage in females compared to males. Lbn3c (long bones 3c) mapped to 55 cM near rs3676545. Lbn3c displays linkage to humerus (LPR=7.02; female-specific trait), ulna (LPR=7.82; more significant in females), femur (LPR=6.14; female-specific trait) and tibia lengths (LPR=5.4; more significant in females). A novel locus named Lbn3d (long bones 3d) mapped to 76 cM near rs13477477 in linkage to humerus length (LPR=4.78).

J:150240

QTLs for long bone length were mapped in F2 and F3 generations of an intercross of

LG/J and SM/J mice. LG/J mice were selected for large body size (~40 g) at 60 days and SM/J mice were selected for small body size (~20 g) at 60 days. There were 506 F2 Mice and 1605 F3 mice.

. The following results were obtained :next to the Marker and Chr in parenthesis are recorded the, cM location, Mbp location ,and nearest SNP

Chr1

Lbn1c (Chr 1,19 cM,41.03 Mbp ,rs13475,837)

Lbn1(Chr 1, 19 cM, 89.08 Mbp, petM22381-169-2)

Lbn18 (Chr1, 56 cM, 152.21 Mbp, rs3688042).

Chr 2

Lbn2a (45 cM, 77.35 Mbp, rs3713848)

Lbn2 (76cM, 156.29 Mbp, gnf02.161.674)

Chr3

Lbn3a (29cM, 60.39 Mbp, rs13477154)

Lbn19 (60cM, 115.92 Mbp,rs13477364)

Lbn20 (81cM, 145.80 Mbp,rs3722447)

Chr4

Lbn11 (29cM, 63.67 Mbp, gnf04.062.327)

Lbn21 (64cM, 133.39 Mbp, rs13477996)

Chr5

Lbn22 (64cM, 128.12 Mbp, rs6377710)

Chr 6:

Lbn23(37 cM 85.33 Mbp, rs13478882)

Lbn5c (72 cM, 144.01 Mbp rs6199136)

Cht7:

Lbn6a (25 cM 50.Mbp, gnf07.056.997)

Chr8:

Lbn7b (2 cM, 9..80, Mbp, rs6273176)

Lbn7a (39 cM 71.85, Mbp, rs13479811)

Chr9:

Lbn24(13.5 cM , 29.85 Mbp, CEL-9_29909656)

Lbn25(42.4 cM 73.42 Mbp rs13480273)

Lbn8c(74 cM 119.74 Mbp, rs8254378)

Chr 10

Lbn9a(33 cM 82.11 Mbp , rs13480678)

Lbn9b(66 cM127.64 Mbp, rs6290842)

Chr 11:

Lbn26 (7 cM16.57 Mbp, rs3724116)

Chr 13:

Lbn14 (48 cM 98.97 Mbp, rs13481990)

Chr14

Lbn27 (43cM 93.07 Mbp, rs3718262)

Chr15:

Lbn28 (25 cM 60.88 Mbp, rs4139476)

Lbn29( 43cM, 87.73 Mbp, rs3720931)

Chr 17:

Lbn10a(17 cM, 41.06 Mbp, CEL-17_40073719)

Chr 19

Lbn17 (4 cM 10.79 Mbp, rs6307076)

References

• Original: J:147462 Norgard EA, et al., Replication of long-bone length QTL in the F(9)-F (10) LG,SM advanced intercross. Mamm Genome. 2009 Apr;20(4):224-35
• All: 1 reference(s)