Table 2.
MiRNAs varying in expression in primary cultures of skeletal muscle cells isolated from semitendinosus muscle of both beef breed bulls (HER and LIM), when compared with the dairy breed (HF; the reference)
| No. | Systematic name | p (Corr) | FC (HER vs. HF) | Log FC (HER vs. HF) | Regulation (HER&LIM vs. HF) | FC (LIM vs. HF) | Log FC (LIM vs. HF) | Active Sequence | miRBase Accession No. |
|---|---|---|---|---|---|---|---|---|---|
| 1 | bta-miR-139 | 3.07E-13 | 123.08 | 6.94 | up | 126.11 | 6.98 | ACTGGAGACACGTGC | MIMAT0003788 |
| 2 | bta-miR-2469 | 1.07E-03 | 83.81 | 6.39 | up | 11.25 | 3.49 | AAGCCGCAGGCCC | MIMAT0012059 |
| 3 | bta-miR-486 | 2.06E-03 | 51.74 | 5.69 | up | 35.07 | 5.13 | CTCGGGGCAGCTCA | MIMAT0009329 |
| 4 | bta-miR-2439-3p | 6.58E-03 | 31.43 | 4.97 | up | 7.98 | 3.00 | TCTGCCTACCTGTCTTC | MIMAT0012014 |
| 5 | bta-miR-449a | 4.82E-02 | 21.21 | 4.41 | up | 10.53 | 3.40 | ACCAGCTAACAATACACTGC | MIMAT0009320 |
| 6 | bta-miR-503-5p | 1.26E-02 | 15.69 | 3.97 | up | 15.71 | 3.97 | CAGTACTGTTCCCGC | MIMAT0025557 |
| 7 | bta-miR-1 | 1.87E-06 | 12.44 | 3.64 | up | 14.67 | 3.87 | ATACATACTTCTTTACATTCC | MIMAT0009214 |
| 8 | bta-miR-133a | 1.68E-06 | 11.63 | 3.54 | up | 12.57 | 3.65 | CAGCTGGTTGAAGGGGAC | MIMAT0009225 |
| 9 | bta-miR-206 | 1.07E-05 | 11.60 | 3.54 | up | 13.36 | 3.74 | CCACACACTTCCTTAC | MIMAT0009260 |
| 10 | bta-miR-133b | 5.70E-06 | 11.53 | 3.53 | up | 12.12 | 3.60 | TAGCTGGTTGAAGGGGACC | MIMAT0009226 |
| 11 | bta-miR-542-5p | 2.59E-02 | 8.77 | 3.13 | up | 25.04 | 4.65 | CTCGTGACATGATGATC | MIMAT0013594 |
| 12 | bta-miR-128 | 2.59E-02 | 4.51 | 2.17 | up | 4.78 | 2.26 | AAAGAGACCGGTTCACTGT | MIMAT0003541 |
| 13 | bta-miR-660 | 5.18E-04 | 2.49 | 1.32 | up | 2.26 | 1.18 | CAGCTCCGATATGCAA | MIMAT0004344 |
| 14 | bta-miR-378b | 2.00E-03 | 2.42 | 1.28 | up | 2.38 | 1.25 | GCCTTCTGACTCCAAG | MIMAT0025535 |
| 15 | bta-miR-378c | 4.33E-03 | 2.25 | 1.17 | up | 2.18 | 1.13 | ACTTCTGACTCCAAGTC | MIMAT0025551 |
| 16 | bta-miR-30a-5p | 6.14E-03 | 2.14 | 1.10 | up | 2.51 | 1.33 | AGCTTCCAGTCGAGG | MIMAT0003841 |
| 17 | bta-miR-30f | 1.45E-02 | 2.14 | 1.10 | up | 2.86 | 1.52 | AGCTGAGAGTGTAGGGT | MIMAT0009282 |
| 18 | bta-miR-9 | 2.77E-02 | −40.65 | −5.35 | down | −16.45 | −4.04 | TCATACAGCTAGATAACCA | MIMAT0009389 |
| 19 | bta-miR-29b | 2.08E-03 | −18.13 | −4.18 | down | −4.24 | −2.08 | AAACACTGATTTCAAATGGT | MIMAT0003828 |
| 20 | bta-miR-31 | 1.99E-03 | −16.57 | −4.05 | down | −213.81 | −7.74 | AGCTATGCCAGCATCTT | MIMAT0003548 |
| 21 | bta-miR-194 | 4.25E-02 | −14.83 | −3.89 | down | −2.55 | −1.35 | TCCACATGGAGTTGCT | MIMAT0009254 |
| 22 | bta-miR-145 | 3.22E-02 | −3.38 | −1.76 | down | −2.82 | −1.5 | AGGGATTCCTGGGAAAAC | MIMAT0003542 |
| 23 | bta-miR-222 | 4.74E-02 | −2.53 | −1.34 | down | −2.12 | −1.08 | ACCCAGTAGCCAG | MIMAT0003530 |
FC fold change, HF Holstein-Friesian, HER Hereford, LIM Limousine; FDR ≤ 0.05; FC ≥ 2.0; n = 4 (see statistical analysis)