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Table 1 Mammary expression of genes regulated by changes in milking frequency in dairy cows during early lactation 1

From: Milk yield responses to changes in milking frequency during early lactation are associated with coordinated and persistent changes in mammary gene expression

Gene Title Gene Symbol Cluster4 Fold change2(d21) P-value (d21) Fold change (d23) P-value (d23) Fold change (d40) P-value (d40) Time3(P-value) Probe ID
Aldehyde dehydrogenase 1 family, member A3 ALDH1A3 1 −1.90 0.003 1.08 0.703 −1.27 0.233 0.016 Bt.8798.1.S1_at
Apolipoprotein E APOE 1 −1.73 0.024 1.18 0.480 −1.47 0.101 0.037 Bt.5215.1.S1_at
MHC class I heavy chain BOLA 1 −1.62 0.018 1.24 0.267 −1.11 0.594 0.016 Bt.29824.1.S1_s_at
Chromosome 20 open reading frame 108 ortholog C13H20ORF108 1 −1.78 0.001 1.18 0.290 −1.57 0.007 0.002 Bt.1858.1.A1_at
Complement component 4 binding protein, alpha C4BPA 1 −1.75 0.045 1.68 0.061 −1.32 0.308 0.008 Bt.4707.1.A1_at
Chemokine (C-C motif) ligand 2, 11 CCL-2, -11 1 −1.99 0.003 1.12 0.566 −1.33 0.172 0.010 Bt.2408.1.S1_s_at
Complement factor B CFB 1 −2.46 0.001 1.35 0.226 −1.82 0.021 0.002 Bt.13542.1.S1_at
Complement factor I CFI 1 −3.26 0.002 1.54 0.204 −2.16 0.029 0.002 Bt.13387.1.S1_at
Chitinase 3-like 1 (cartilage glycoprotein-39) CHI3L1 1 −3.90 0.009 2.79 0.041 −2.26 0.098 0.002 Bt.5238.1.S1_at
Claudin 4 CLDN4 1 −1.90 < 0.001 1.06 0.679 −1.23 0.165 0.002 Bt.12177.1.S1_at
Clusterin CLU 1 −2.42 0.004 1.46 0.185 −1.98 0.022 0.004 Bt.12504.1.S1_at
Crystallin, alpha B CRYAB 1 −1.83 0.001 1.43 0.045 −1.42 0.047 0.001 Bt.222.1.S1_at
Colony stimulating factor 1 receptor CSF1R 1 −1.83 0.002 1.13 0.484 −1.44 0.048 0.008 Bt.21071.2.A1_at
Cytochrome b-561 CYB561 1 −1.62 0.001 1.29 0.051 −1.32 0.036 < 0.001 Bt.4360.1.S1_at
Cytochrome b reductase 1 CYBRD1 1 −2.06 0.004 1.38 0.163 −2.07 0.003 0.003 Bt.22055.1.S1_at
Cytochrome P450, family 11, subfamily A, polypeptide 1 CYP11A1 1 −1.97 0.007 1.30 0.264 −1.50 0.090 0.008 Bt.7190.1.S1_at
Early growth response 1 EGR1 1 −2.36 < 0.001 1.53 0.055 −1.83 0.009 < 0.001 Bt.22265.1.S1_at
v-erb-b2 homolog 3 ERBB3 1 −1.76 < 0.001 1.33 0.049 −1.54 0.005 < 0.001 Bt.19517.1.S1_at
v-fos FBJ murine osteosarcoma viral oncogene homolog FOS 1 −2.68 0.001 1.33 0.257 −1.40 0.187 0.002 Bt.2899.1.S2_at
Forkhead box Q1 FOXQ1 1 −2.82 0.004 1.34 0.370 −1.76 0.092 0.008 Bt.15658.1.S1_at
Inositol 1,4,5-triphosphate receptor, type 1 ITPR1 1 −1.80 0.007 1.14 0.511 −1.70 0.014 0.018 Bt.23606.1.S1_at
Jun oncogene JUN 1 −2.28 0.001 1.23 0.348 −1.11 0.620 0.003 Bt.11159.1.S1_at
V-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog KIT 1 −1.82 0.011 1.19 0.421 −1.56 0.050 0.018 Bt.26445.1.A1_at
Kruppel-like factor 10 KLF10 1 −2.15 0.001 1.11 0.609 −1.40 0.117 0.007 Bt.9527.2.S1_at
Kruppel-like factor 11 KLF11 1 −1.89 0.001 1.08 0.644 −1.42 0.054 0.007 Bt.16916.3.S1_at
Keratin 15 KRT15 1 −1.89 0.006 1.17 0.454 −1.55 0.046 0.013 Bt.22801.1.S1_at
Keratin 7 KRT7 1 −1.84 0.002 1.21 0.278 −1.40 0.066 0.004 Bt.8105.1.S1_at
Keratin 8 KRT8 1 −2.17 0.002 1.32 0.209 −1.51 0.072 0.002 Bt.23608.1.S1_s_at
Lectin, galactoside-binding, soluble LGALS3 1 −2.12 0.002 1.22 0.361 −1.51 0.063 0.004 Bt.1416.1.S1_at
Hypothetical LOC516522 LOC516522 1 −2.04 0.004 1.20 0.415 −1.95 0.007 0.010 Bt.24918.1.A1_at
Similar to Probable phospholipid-transporting ATPase IIA (ATPase class II type 9A) LOC516579 1 −1.77 0.003 1.13 0.470 −1.41 0.056 0.009 Bt.21546.1.S1_at
Hypothetical protein LOC785058 LOC785058 1 −1.95 0.007 1.54 0.068 −1.15 0.533 0.002 Bt.9679.1.S1_at
Hypothetical protein LOC786129 LOC786129 1 −1.78 0.005 1.21 0.311 −1.37 0.099 0.007 Bt.685.1.A1_at
Similar to Extracellular proteinase inhibitor LOC787253 1 −1.68 0.005 1.20 0.277 −1.05 0.750 0.006 Bt.9675.1.S1_at
Leukotriene A4 hydrolase LTA4H 1 −1.64 0.004 1.32 0.089 −1.30 0.110 0.002 Bt.6143.1.S1_at
Lactotransferrin LTF 1 −1.74 0.004 1.17 0.361 −1.44 0.045 0.008 Bt.4802.1.S1_at
Hypothetical LOC614805 MGC165862 1 −2.33 0.004 1.38 0.228 −1.65 0.066 0.004 Bt.9774.1.S1_a_at
Melanophilin MLPH 1 −1.82 0.006 1.24 0.284 −1.35 0.135 0.007 Bt.29245.1.A1_at
AT rich interactive domain 5B ARID5B 1 −1.68 0.010 1.25 0.242 −1.71 0.008 0.010 Bt.13289.2.S1_at
Plexin domain containing 2 PLXDC2 1 −1.71 0.001 1.22 0.172 −1.35 0.045 0.001 Bt.25703.1.A1_at
Protease, serine, 22 PRSS22 1 −1.92 0.007 1.22 0.369 −1.24 0.326 0.012 Bt.29351.1.A1_at
Protein tyrosine phosphatase, receptor type, D PTPRD 1 −1.88 0.007 1.12 0.603 −1.33 0.199 0.022 Bt.18753.1.A1_at
Retinol binding protein 1, cellular RBP1 1 −2.44 0.003 1.29 0.358 −1.70 0.060 0.006 Bt.17810.1.S1_a_at
Regulator of G-protein signaling 2, 24 kDa RGS2 1 −1.95 0.003 1.14 0.520 −1.37 0.128 0.009 Bt.10855.1.S1_at
S100 calcium binding protein A14 S100A14 1 −1.83 0.004 1.13 0.520 −1.54 0.032 0.012 Bt.21342.1.S1_at
S100 calcium binding protein A2 S100A2 1 −2.11 0.007 1.35 0.246 −1.52 0.108 0.007 Bt.5970.1.S1_a_at
Serum amyloid A 3 SAA3 1 −2.96 0.010 2.53 0.024 −1.56 0.259 0.001 Bt.278.1.S1_at
Scinderin SCIN 1 −1.72 0.005 1.18 0.340 −1.54 0.022 0.009 Bt.3980.1.S1_at
Shisa homolog 2 (Xenopus laevis) SHISA2 1 −1.85 0.011 1.19 0.447 −1.61 0.043 0.021 Bt.22389.1.S1_at
Solute carrier family 1, member 1 SLC1A1 1 −1.54 0.010 1.36 0.058 −1.36 0.055 0.003 Bt.23659.1.S1_at
Sortilin 1 SORT1 1 −1.62 0.002 1.25 0.113 −1.19 0.216 0.001 Bt.23586.1.S1_at
Sex determining region Y)-box 4 SOX4 1 −1.89 0.007 1.23 0.342 −1.78 0.013 0.011 Bt.12453.1.A1_at
Sex determining region Y-box 9 SOX9 1 −1.80 0.023 1.16 0.543 −1.84 0.019 0.042 Bt.6983.1.S1_at
Tumor-associated calcium signal transducer 2 TACSTD2 1 −2.19 0.005 1.27 0.351 −1.43 0.166 0.009 Bt.1694.1.S1_at
Transcription factor CP2-like 1 TFCP2L1 1 −1.81 0.004 1.16 0.433 −1.42 0.067 0.009 Bt.28282.1.S1_at
Thrombospondin 1 THBS1 1 −2.11 0.001 1.15 0.467 −1.57 0.023 0.003 Bt.5301.1.S1_at
Zinc finger protein 36 ZNF36 1 −1.67 0.001 1.21 0.158 −1.40 0.017 0.001 Bt.19706.1.S1_at
Transcribed locus - 1 −1.84 0.012 1.20 0.428 −2.12 0.003 0.020 Bt.18855.1.A1_at
Transcribed locus - 1 −2.13 0.007 1.37 0.230 −2.07 0.009 0.007 Bt.13764.1.S1_at
Transcribed locus - 1 −1.56 0.003 1.41 0.016 −1.45 0.010 < 0.001 Bt.25328.1.A1_at
Transcribed locus - 1 −1.68 0.011 1.21 0.316 −1.48 0.047 0.013 Bt.24919.1.S1_at
IQ motif containing GTPase activating protein 1 IQGAP1 2 −1.58 0.015 1.46 0.042 1.22 0.267 0.003 Bt.21982.1.S1_a_at
RNA binding motif protein 5 RBM5 2 −1.68 0.005 1.46 0.032 1.17 0.358 0.001 Bt.27798.1.A1_at
S100 calcium binding protein A12 S100A12 2 −1.58 0.077 1.32 0.268 1.00 0.986 0.046 Bt.357.1.S1_at
ATPase type 13A4 ATP13A4 3 1.78 0.005 −1.13 0.517 1.04 0.835 0.015 Bt.25459.1.A1_at
Frizzled family receptor 5 FZD5 3 1.95 0.001 −1.06 0.769 1.20 0.335 0.011 Bt.16100.2.S1_at
Hypothetical protein LOC540918 LOC540918 3 1.89 0.001 −1.14 0.435 1.21 0.246 0.003 Bt.12714.1.A1_at
Lipin1 LPIN1 3 1.90 0.004 −1.09 0.661 1.18 0.424 0.017 Bt.6642.2.S1_at
Myosin binding protein C, slow type MYBPC1 3 1.78 0.006 −1.14 0.493 1.25 0.250 0.015 Bt.23229.1.S1_at
Nebulin NEB 3 1.75 0.002 −1.21 0.238 1.28 0.134 0.003 Bt.14153.1.S1_at
Oxidative stress induced growth inhibitor family member 2 OSGIN2 3 1.73 0.001 −1.18 0.265 1.04 0.771 0.002 Bt.21696.1.S1_at
Transcribed locus - 3 1.82 0.009 −1.29 0.232 1.03 0.879 0.008 Bt.21137.2.S1_at
Low density lipoprotein related protein 2 LRP2 4 1.94 < 0.001 −1.13 0.315 −1.01 0.950 < 0.001 Bt.8371.1.S1_at
Myostatin MSTN 4 1.78 < 0.001 −1.19 0.188 −1.28 0.067 < 0.001 Bt.8967.1.S1_at
Solute carrier family 34 SLC34A2 4 1.74 0.007 −1.18 0.389 −1.02 0.914 0.013 Bt.21137.1.S1_at
  1. 1Cows (n = 6) were assigned to twice daily milking () of the left udder half and four times daily milking () of the right udder half during d 1 to 21 of lactation. Mammary biopsies from both udder halves were obtained on d 21, 23, and 40 of lactation. Differential gene expression was detected using Affymetrix GeneChip® Bovine Genome Arrays.
  2. 2Signed fold change (4× vs. 2× udder halves).
  3. 3Time = change in differential gene expression between 2× and 4× udder halves on day 21 vs. that on day 23 (magnitude of difference ≥ 2; P ≤ 0.05).
  4. 4Genes were grouped into four clusters based on the temporal pattern of differential expression.
  5. Genes in bold were consistently differentially expressed in a previous independent microarray experiment [15].