Table 2.
Extracellular vesicle derived miRNA with differential abundance in day 17 and 24 cows.*
| Day 17 - Pregnant vs EM | Counts per million (cpm) | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Day 17 - Preg vs EM | EM-d17 | Pregnant-d17 | |||||||||
| Locus | miRNA | FC | FDR | 744D17 | 818D17 | 839D17 | 9614D17 | 2834D17 | 775D17 | 806D17 | 817D17 |
| chr1:19930511-19930532 | let-7c | −4.38 | 0.08 | 345.1 | 39.6 | 106.4 | 60.2 | 7.4 | 31.6 | 20.3 | 61.5 |
| chr15:33353437-33353458 | mir-100 | −4.41 | 0.07 | 110.8 | 23.4 | 118.5 | 27.9 | 7.6 | 14.6 | 15.6 | 24.0 |
| chr3:80666467-80666486 | mir-101-1 | −5.50 | 0.09 | 1199.8 | 176.3 | 2884.4 | 624.4 | 49.8 | 253.7 | 186.2 | 409.4 |
| chr8:39940843-39940862 | mir-101-2 | −5.46 | 0.09 | 1161.8 | 173.5 | 2913.8 | 643.1 | 54.8 | 257.5 | 186.0 | 409.0 |
| chr25:36892095-36892116 | mir-106b | −3.66 | 0.06 | 129.8 | 49.4 | 185.9 | 66.9 | 10.9 | 28.4 | 19.0 | 58.5 |
| chr1:19881359-19881380 | mir-125b-2 | −3.84 | 0.06 | 117.3 | 30.7 | 108.1 | 25.9 | 13.3 | 13.0 | 9.8 | 34.2 |
| chr21:67429798-67429819 | mir-127 | −4.68 | 0.06 | 435.1 | 99.4 | 183.9 | 52.8 | 23.6 | 34.9 | 41.7 | 54.8 |
| chr5:103859017-103859037 | mir-141 | −7.26 | 0.07 | 71.9 | 16.3 | 959.6 | 99.2 | 12.3 | 20.5 | 46.8 | 86.7 |
| chr7:62809359-62809379 | mir-143 | −5.19 | 0.08 | 6032.7 | 1139.5 | 3956.0 | 723.5 | 291.2 | 431.6 | 520.1 | 959.2 |
| chr4:70414256-70414277 | mir-148a | −4.16 | 0.09 | 39.3 | 10.9 | 104.4 | 54.1 | 5.1 | 4.0 | 8.7 | 32.8 |
| chr12:19596395-19596415 | mir-15a | −4.85 | 0.08 | 518.5 | 239.5 | 1153.4 | 245.4 | 17.0 | 162.9 | 88.8 | 177.9 |
| chr1:107923436-107923457 | mir-15b | −4.50 | 0.06 | 66.5 | 22.9 | 175.1 | 58.8 | 3.8 | 15.4 | 10.0 | 44.0 |
| chr12:19596254-19596275 | mir-16a | −4.94 | 0.07 | 633.6 | 184.7 | 1242.2 | 322.0 | 32.0 | 136.5 | 82.2 | 234.0 |
| chr1:107923291-107923312 | mir-16b | −4.86 | 0.08 | 4052.6 | 1424.3 | 7512.0 | 1767.8 | 214.9 | 965.2 | 439.0 | 1417.3 |
| chr14:1883889-1883911 | miR-1839 | −3.74 | 0.08 | 68.5 | 24.4 | 170.3 | 56.7 | 6.2 | 17.7 | 14.3 | 48.6 |
| chr16:40491616-40491636 | mir-199a-1 | −5.57 | 0.05 | 273.1 | 38.9 | 133.5 | 29.2 | 3.7 | 30.0 | 17.4 | 30.9 |
| chr11:98867682-98867702 | mir-199b | −5.01 | 0.06 | 264.8 | 38.6 | 140.0 | 28.2 | 4.1 | 34.5 | 18.8 | 33.4 |
| chr3:102923816-102923837 | mir-2415 | −4.20 | 0.06 | 40.0 | 85.0 | 83.7 | 23.0 | 3.8 | 27.7 | 4.5 | 17.4 |
| chr25:36892500-36892521 | mir-25 | −4.49 | 0.08 | 8499.1 | 8014.2 | 10757.4 | 2340.1 | 442.0 | 2448.6 | 1123.2 | 2448.4 |
| chr5:25109081-25109103 | mir-331 | −3.82 | 0.05 | 36.4 | 30.3 | 56.6 | 15.7 | 2.7 | 11.7 | 7.9 | 13.2 |
| chr7:18380018-18380037 | mir-339b | −4.17 | 0.09 | 147.6 | 233.1 | 215.0 | 47.0 | 4.2 | 71.0 | 22.2 | 53.9 |
| chr5:117120190-117120211 | mir-3596 | −4.49 | 0.08 | 445.9 | 61.7 | 403.1 | 175.3 | 18.5 | 42.3 | 53.4 | 124.7 |
| chr7:16508930-16508950 | mir-3604-1 | −5.26 | 0.05 | 278.8 | 42.9 | 153.9 | 30.2 | 4.4 | 38.2 | 18.5 | 31.3 |
| chr21:67603292-67603313 | mir-409b | −3.77 | 0.07 | 58.4 | 26.7 | 47.8 | 12.1 | 4.3 | 9.4 | 12.4 | 10.8 |
| chr19:20796893-20796915 | mir-451 | −5.89 | 0.06 | 7211.2 | 2283.3 | 7187.3 | 1688.8 | 171.8 | 1281.1 | 588.5 | 997.1 |
| chrX:62939343-62939363 | mir-652 | −3.50 | 0.09 | 52.5 | 21.6 | 121.4 | 51.8 | 5.0 | 11.5 | 17.7 | 37.0 |
| chr1:19931232-19931253 | mir-99a | −4.68 | 0.05 | 182.0 | 34.2 | 138.9 | 37.7 | 12.1 | 15.1 | 14.3 | 39.5 |
| chr3:94548627-94548648 | novel | −5.31 | 0.04 | 78.2 | 53.4 | 53.2 | 15.4 | 2.0 | 16.3 | 4.8 | 13.1 |
| chr6:113889878-113889895 | novel | −6.09 | 0.05 | 501.3 | 169.9 | 1396.4 | 389.1 | 52.1 | 111.2 | 113.9 | 119.5 |
| chr20:10975305-10975327 | novel | −6.52 | 0.06 | 99.0 | 13.1 | 578.5 | 29.9 | 35.4 | 14.3 | 32.8 | 24.7 |
| Day 17 - Pregnant vs Control | Day 17 - Preg vs Cont | Control- d17 | Pregnant-d17 | ||||||||
| Locus | miRNA | FC | FDR | 1163D17 | 8336D17 | 9D17 | BlkD17 | 2834D17 | 775D17 | 806D17 | 817D17 |
| chr6:113889878-113889895 | novel | −5.25 | 0.09 | 215.8 | 486.5 | 1096.7 | 447.2 | 52.1 | 111.2 | 113.9 | 119.5 |
| Day 24 - EM vs Control | Day 24 - EM vs Cont | Control-d24 | EM-d24 | ||||||||
| Locus | miRNA | FC | FDR | 1163D24 | 8336D24 | 9D24 | BlkD24 | 744D24 | 818D24 | 839D24 | 9614D24 |
| chr13:55227306-55227328 | mir-133a-1 | −18.59 | 0.10 | 6.3 | 220.3 | 2278.1 | 7.0 | 29.5 | 32.3 | 71.6 | 13.2 |
| chr24:34844466-34844488 | mir-133a-2 | −20.16 | 0.09 | 7.8 | 206.5 | 2272.4 | 8.0 | 26.1 | 34.0 | 61.5 | 12.9 |
*
Normalized sample counts (counts per million) ≥ 10 in all four samples in at least one of the two groups. Fold Change (FC) and False discovery rates (FDR) are shown for each miRNA as are the individual read counts for the four cows in each treatment group. Shading of samples represents the quantity of reads (red = increased quantity, light tan = decrease quantity).