Table 2.
Bovine orthologs of imprinted mammalian genes in human and mouse inside the regions harboring POE–QTL.
| Chrm | Traits | Genomic region (Mb) | Linkage region (cM)a | Symbol | Description | Human location | Mouse location | Imprinting status | Type of expression | References |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | ABF, mm | 37.8–52.0 | 35.2–46.2 | RG9MTD1 | RNA (guanine-9-) methyltransferase domain containing 1 | 3:101.3 | 16:56.0 | IMPRINTED | P | Gregg et al. (2010) |
| 1 | ABF, mm | 37.8–52.0 | 35.2–46.2 | PCNP | PEST proteolytic signal containing nuclear protein | 3:101.3 | 16:56.0 | IMPRINTED | M | Gregg et al. (2010) |
| 2 | WWT, kg | 5.0–10.8 | 0–9.1 | IWS1 | IWS1 homolog (S. cerevisiae) | 2:128.2 | 18:32.2 | IMPRINTED | P | Gregg et al. (2010) |
| YWT, kg | ||||||||||
| SWT, kg | ||||||||||
| HCW, kg | ||||||||||
| KPH, % | ||||||||||
| 3 | BWT, kg | 47.3–57.1 | 62.4–67.9 | CNN3 | Calponin 3, acidic | 1:95.4 | 3:121.1 | IMPRINTED | M | Gregg et al. (2010) |
| ABF, mm | ||||||||||
| 3 | BWT, kg ABF, mm | 47.3–57.1 | 62.4–67.9 | TMED5 | Transmembrane emp24 protein transport domain containing 5 | 1:93.6 | 5:108.6 | IMPRINTED | P | Gregg et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | NGEF | Neuronal guanine nucleotide exchange factor | 2:233.7 | 1:89.4 | IMPRINTED | M | Gregg et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | UGT1A1 | UDP glucuronosyltransferase 1 family, polypeptide A1 | 2:234.7 | 1:90.1 | PREDICTED | n.d. | Brideau et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | COPS8 | COP9 constitutive photomorphogenic homolog subunit 8 (Arabidopsis) | 2:238.0 | 1:92.5 | IMPRINTED | M | Gregg et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | RAMP1 | Receptor (G protein-coupled) activity modifying protein 1 | 2:238.8 | 1:93.1 | IMPRINTED | n.d. | Li et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | KIF1A | Kinesin family member 1A | 2:241.7 | 1:94.9 | IMPRINTED | M | Gregg et al. (2010), Li et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | MTERFD2 | MTERF domain containing 2 | 2:242.0 | 1:95.2 | IMPRINTED | M | Gregg et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | PASK | PAS domain containing serine/threonine kinase | 2:242.0 | 1:95.2 | IMPRINTED | n.d. | Li et al. (2010) |
| 3 | BWT, kg ABF, mm | 119.1–127.9 | 117.8–125.2 | STK25 | Serine/threonine kinase 25 (STE20 homolog, yeast) | 2:242.4 | 1:95.5 | IMPRINTED | n.d. | Li et al. (2010) |
| 3 | BWT, kg | 119.1–127.9 | 117.8–125.2 | NEU4 | Sialidase 4 | 2:242.8 | 1:95.9 | PREDICTED | n.d. | Brideau et al. (2010) |
| ABF, mm | ||||||||||
| 3 | BWT, kg | 119.1–127.9 | 117.8–125.2 | PLXNA1 | Plexin A1 | 3:126.7 | 6:89.3 | IMPRINTED | M | Gregg et al. (2010) |
| ABF, mm | ||||||||||
| 4 | SWT, kg | 70.4–81.8 | 63.9–72.0 | HOXA10 | Homeobox A10 | 7:27.2 | 6:52.2 | PREDICTED | n.d. | Brideau et al. (2010) |
| HCW, kg | ||||||||||
| 4 | SWT, kg | 70.4–81.8 | 63.9–72.0 | MRPL32 | Mitochondrial ribosomal protein L32 | 7:43.0 | 13:14.7 | IMPRINTED | M | Gregg et al. (2010) |
| HCW. Kg | ||||||||||
| 5 | YWT, kg | 66.5–78.2 | 72.4–77.6 | TDG | Thymine-DNA glycosylase | 12:104.4 | 10:82.1 | IMPRINTED | P | Gregg et al. (2010) |
| HCW. Kg | ||||||||||
| 5 | YWT, kg | 66.5–78.2 | 72.4–77.6 | TXNRD1 | Thioredoxin reductase 1 | 12:104.6 | 10:82.3 | IMPRINTED | P | Gregg et al. (2010) |
| HCW, kg | ||||||||||
| 5 | YWT, kg | 66.5–78.2 | 72.4–77.6 | CKAP4 | Cytoskeleton-associated protein 4 | 12:106.6 | 10:84.0 | IMPRINTED | M | Gregg et al. (2010) |
| HCW, kg | ||||||||||
| 6 | BWT, kg | 5.5–19.4 | 6.8–15.7 | SEC24D | SEC24 family, member D (S. cerevisiae) | 4:119.6 | 3:123.0 | IMPRINTED | P | Gregg et al. (2010) |
| 7 | ABF, mm | 1.0–5.0 | 0–7.9 | CRTC1 | CREB regulated transcription coactivator 1 | 19:18.8 | 8:72.9 | IMPRINTED | P | Gregg et al. (2010) |
| 8 | BWT, kg | 16.3–27.2 | 19.1–30.7 | SLC24A2 | Solute carrier family 24 (sodium/potassium/calcium exchanger), member 2 | 9:19.5 | 4:86.6 | IMPRINTED | P | Gregg et al. (2010) |
| 9 | BWT, kg | 1.0–10.0 | 0–8.1 | SMAP1 | Small ArfGAP 1 | 6:71.4 | 1:23.9 | IMPRINTED | M | Gregg et al. (2010) |
| 11 | WWT, kg KPH, % | 74.1–86.8 | 72.4–84.5 | HADHB | Mitochondrial trifunctional protein, beta subunit | 2:26.5 | 5:30.5 | IMPRINTED | P | Gregg et al. (2010) |
| 12 | SWT, kg | 86.8–67.3 | 84.5–79.7 | UBAC2 | UBA domain containing 2 | 13:99.9 | 14:122.3 | IMPRINTED | P | Gregg et al. (2010) |
| 13 | SWT, kg | 46.6–58.4 | 49.9–58.9 | ZMYND11 | Zinc finger, MYND Domain containing 11 | 10:0.2 | 13:9.7 | IMPRINTED | P | Gregg et al. (2010) |
| 13 | SWT, kg | 46.6–58.4 | 49.9–58.9 | RPS21 | Ribosomal protein S21 | 20:61.0 | 2:180.0 | IMPRINTED | M | Gregg et al. (2010) |
| 13 | SWT, kg | 46.6–58.4 | 49.9–58.9 | GNAS | GNAS complex locus | 20:57.4 | 2:174.1 | IMPRINTED | M | Ruddock et al. (2004), Sikora et al. (2011) |
| 18 | BWT, kg | 63.0–65.9 | 78.9–84.7 | ZIM2 | Zinc finger, imprinted 2 | 19:57.3 | 7:6.6 | IMPRINTED | M | Kim et al. (2004) |
| 18 | BWT, kg | 63.0–65.9 | 78.9–84.7 | PEG3 | Paternally expressed gene 3 | 19:57.3 | 7:6.7 | IMPRINTED | P | Flisikowski et al. (2010) |
| 18 | BWT, kg | 63.0–65.9 | 78.9–84.7 | APEG3 | Antisense transcript gene of PEG3 | 19:57.3 | 7:6.7 | IMPRINTED | P | Glasgow et al. (2005), Bischoff et al. (2009) |
BWT, birth weight; WWT, weaning weight; YWT, yearling weight; SWT, slaughter weight; HCWT, hot carcass weight; ABF, adjusted subcutaneous fat thickness between the 12th and 13th ribs; KPH = percentage of kidney, pelvic, and heart fat relative to carcass weight. Gene names compiled from GenBank resources including OMIM, Unigene, LocusLink, curated imprinted genes from imprinted gene catalog (see text footnote 2) and mouse imprinting maps (see text footnote 3) and according to the HGNC. Bovine orthologs are according to B. taurus reference genome sequence version 5.2. Genes in bold have experimental proof of imprinting status in cattle. P, paternal expression, M, maternal expression, n.d., not determined.
aThe distance in cM is according to the MARC linkage map (Ihara et al., 2004) between the markers used in our study.