Introduction
Materials and methods
Animals and diets
Components | REF (g/kg) AIN-93 M | C10 (g/kg) | CF (g/kg) | I (g/kg) |
---|---|---|---|---|
Casein | 121.5 | 97.1 | 109.7 | 118.7 |
L-Cystine | 1.8 | 1.4 | 1.4 | 1.6 |
Corn starch | 418.1 | 423.7 | 437.2 | 426.4 |
Maltodextrin | 148.5 | 118.7 | 120.4 | 131.5 |
Sucrose | 102.6 | 108.7 | 110.9 | 110.9 |
Soybean oil | 38.2 | 26.2 | 33.5 | 38.9 |
Cellulose | 50 | 24.5 | 26.5 | 50.0 |
Minerals | 35.3 | 27.7 | 27.9 | 31.3 |
Vitamins | 9.1 | 7.2 | 7.2 | 8.1 |
Choline bitartrate | 2.5 | 2.0 | 2.0 | 2.2 |
tert-Butylhydroquinone | 0.008 | 0.006 | 0.006 | 0.006 |
Water | 72.4 | 63 | 71.1 | 72 |
Cocoa powder | – | 100 | – | – |
Protein | – | 22 | – | – |
Carbohydrate | – | 16 | – | – |
Lipid | – | 11 | – | – |
Fiber (insoluble/soluble) | – | 34 (25.5/8.5) | – | – |
Minerals | – | 6 | – | – |
Total polyphenols1
| – | 4 | – | – |
Water | – | 7 | – | – |
Cocoa fiber powder | – | – | 52.3 | – |
Protein | – | – | 8 | – |
Carbohydrate | – | – | 0.5 | – |
Lipid | – | – | 4.8 | – |
Fiber (insoluble/soluble) | – | – | 31.9 (23.4/8.5) | – |
Minerals | – | – | 7 | – |
Total polyphenols1
| – | – | 0.2 | – |
Water | – | – | – | – |
Inulin powder | – | – | – | 8.5 |
Protein | – | – | – | – |
Carbohydrate | – | – | – | – |
Lipid | – | – | – | – |
Fiber (insoluble/soluble) | – | – | – | 8.5 (−/8.5) |
Minerals | – | – | – | – |
Total polyphenols1
| – | – | – | – |
Water | – | – | – | – |
Sample collection and preparation
RNA extraction
Microarray procedure
Microarray data analysis
Gene function analysis
Symbol | C10 vs REF | CF vs REF | I vs REF |
---|---|---|---|
log2 FC |
log2 FC |
log2 FC | |
Scgb1a1
| 3.948 | 1.716 | 1.139 |
Scnn1g
| 3.119 | 1.133 | 0.573 |
Fxyd4
| 2.583 | 2.089 | 0.718 |
Slc15a1
| 2.332 | 1.388 | 0.475 |
Gbp1
| 2.207 | 1.662 | 0.432 |
Cyp2f4
| 2.185 | 1.436 | 0.367 |
Dpysl4
| 2.069 | 1.387 |
0.242
|
Fmo2
| 2.040 | 1.007 | 0.426 |
Pdyn
| 1.873 |
0.194
|
0.175
|
Mt2A
| 1.656 | 0.644 | −0.147 |
RGD1561239
| 1.597 | 1.787 | 0.742 |
Sftpd
| 1.583 | 0.163 | 0.351 |
Mme
| 1.580 | 0.636 | 0.353 |
Hoxd13
| 1.575 | 0.615 | 0.100 |
Chst5
| 1.533 | 0.591 | 0.082 |
Atp12a
| 1.457 | 1.630 | 0.500 |
Thbs4
| 1.450 | 0.908 | 0.302 |
Hoxd10
| 1.403 | 0.668 |
0.164
|
Trpv1
| 1.390 | 0.749 |
0.058
|
Hoxb13
| 1.358 | 0.786 | 0.101 |
Spink3
| 1.338 | 1.162 | 0.463 |
LOC687303
| 1.327 | 0.734 | 0.755 |
Abat
| 1.319 | 1.272 | 0.477 |
Angptl4
| 1.316 | 0.914 | 0.670 |
Aox4
| 1.311 |
0.054
|
0.320
|
B3gnt7
| 1.265 | 0.403 | 0.019 |
Pcsk9
| 1.253 | 0.048 | 0.063 |
RGD1560608
| 1.225 | 0.759 | 0.709 |
Guca2b
| 1.211 | 0.811 |
0.287
|
Padi3
| 1.190 | 0.832 | 0.462 |
Scnn1b
| 1.181 | 0.499 |
0.057
|
LOC287167
| 1.178 | 0.607 | 0.296 |
RGD1308274
| 1.142 |
0.073
| 0.321 |
Smc1b
| 1.133 | 0.968 |
0.031
|
Pde7a
| 1.129 | 0.708 | 0.405 |
LOC100363350
| 1.126 | 0.621 | 0.446 |
Gsta2
| 1.111 | 0.537 |
0.157
|
Slc20a1
| 1.110 | 0.624 |
0.056
|
RGD1310110
| 1.097 | 0.410 |
0.231
|
LOC689064
| 1.095 | 1.024 | 0.501 |
Rnase1
| 1.094 | 1.063 | 1.218 |
Dnase1
| 1.088 | 1.087 |
0.124
|
siat7D
| 1.058 | 0.363 |
0.096
|
Serpinc1
| 1.053 | 0.873 | 0.469 |
LOC494499
| 1.029 | 0.576 |
0.276
|
Fbxl13
| 1.028 | 1.009 |
0.067
|
Alox15
| 1.028 | 0.387 |
0.191
|
Creg1
| 1.021 | 0.406 |
−
0.008
|
Rnase1l2
| 1.010 | 0.857 |
1.012
|
Alas2
| 1.007 | 0.997 | 0.452 |
Symbol | C10 vs REF | CF vs REF | I vs REF | Symbol | C10 vs REF | CF vs REF | I vs REF |
---|---|---|---|---|---|---|---|
log2 FC |
log2 FC |
log2 FC |
log2 FC |
log2 FC |
log2 FC | ||
Syce2
| −1.000 | −1.117 |
0.028
|
Olfm4
| −1.291 | −0.826 |
0.002
|
Chga
| −1.011 | −0.328 | −0.133 |
Mt3
| −1.298 | −0.631 | −0.372 |
Smpx
| −1.016 | −0.349 | −0.381 |
Casq2
| −1.298 | −0.643 |
−
0.218
|
Myl2
| −1.019 | −0.940 | −0.823 |
Hsd3b5
| −1.302 | −0.648 | −0.340 |
Ptgis
| −1.026 | −0.370 |
−
0.173
|
Gsta5
| −1.308 | −0.560 |
−
0.158
|
Cfd
| −1.037 |
−
0.087
| 0.009 |
Pln
| −1.309 | −0.384 | −0.349 |
Msln
| −1.041 | 0.382 | 0.377 |
Nox1
| −1.313 | −0.256 | 0.207 |
LOC360228
| −1.041 | 0.559 | 0.231 |
Me1
| −1.324 | −0.443 |
−
0.264
|
Kcnj5
| −1.043 | −1.062 | −0.766 |
Casc4
| −1.334 | −0.688 | −0.715 |
Car3
| −1.045 | 0.278 | −0.263 |
LOC682360
| −1.335 | −0.459 | −0.314 |
Slpil2
| −1.050 |
0.102
| 0.425 |
Sln
| −1.360 | −0.649 | −0.410 |
Ca2
| −1.055 | −0.551 | −0.087 |
RGD1563231
| −1.370 | −0.170 | −0.580 |
Rgs2
| −1.059 | −0.856 | −0.760 |
Slpi
| −1.378 |
0.188
| 0.552 |
Mfsd2a
| −1.059 | −0.455 |
−
0.262
|
RGD1562127
| −1.382 | −0.687 | −0.360 |
Tnfrsf12a
| −1.059 | −0.600 | −1.353 |
Sgcg
| −1.386 | −0.884 | −0.543 |
Car8
| −1.060 | −0.525 | −0.339 |
LOC685106
| −1.390 | 0.215 | −0.613 |
Mybpc2
| −1.064 | −0.459 |
−
0.353
|
Hdc
| −1.393 |
−
0.281
|
−
0.076
|
Gcnt3
| −1.071 | −0.549 | −0.183 |
Retnlb
| −1.420 | 1.223 | 1.939 |
Mrap
| −1.072 | −0.045 | −0.363 |
RGD1565374
| −1.430 | −0.901 | −0.378 |
Tmprss9
| −1.077 | −1.024 | −0.582 |
Apobec2
| −1.436 | −0.613 |
−
0.243
|
Gldn
| −1.085 | −0.522 |
−
0.161
|
Sypl2
| −1.457 | −0.801 | −0.867 |
Hsd3b6
| −1.086 | −0.518 | −0.228 |
Fcer1a
| −1.497 |
−
0.248
|
−
0.283
|
Casq1
| −1.086 | −0.436 |
−
0.282
|
Hsd17b6
| −1.503 | −0.988 | −0.325 |
RGD1560314
| −1.089 | −0.959 |
−
0.119
|
RGD1565970
| −1.509 | −0.198 | 0.413 |
RGD1309651
| −1.094 | −0.426 |
−
0.103
|
Tph1
| −1.518 | −0.642 | −0.305 |
Ly49i2
| −1.102 | −0.604 | −1.177 |
Cfb
| −1.551 | 0.167 | 0.560 |
LOC363060
| −1.108 | −0.829 | −0.616 |
Slfn3
| −1.558 |
0.166
| 0.249 |
LOC688635
| −1.113 | −0.189 |
−
0.038
|
Retnlg
| −1.560 |
−
0.018
| 0.509 |
Kif1c
| −1.125 | −0.943 | −0.701 |
LOC679045
| −1.562 | −0.216 | −0.234 |
LOC687842
| −1.126 | −0.830 | −0.489 |
Cma1
| −1.583 |
−
0.288
| 0.256 |
Scx
| −1.131 | −0.368 | −0.413 |
Cpa3
| −1.609 | −0.258 |
−
0.115
|
Slc13a1
| −1.134 | −0.585 | −0.301 |
Retnla
| −1.627 | 0.878 | 1.162 |
Ccr10
| −1.137 |
0.036
| 0.419 |
Cyp4f1
| −1.634 | −0.582 | 0.169 |
Mzb1
| −1.140 | 0.064 | 0.772 |
Npc1l1
| −1.662 | −1.294 | −0.707 |
Ms4a2
| −1.144 |
−
0.127
|
0.012
|
Tff1
| −1.663 | −0.786 | −0.310 |
Rup2
| −1.145 | −1.201 | −0.220 |
Atf3
| −1.681 | −1.015 | −1.715 |
Rrad
| −1.150 | −0.320 |
−
0.193
|
Fabp1
| −1.682 | −0.780 | −0.074 |
Fbln7
| −1.156 | −0.540 | −0.398 |
Tnfrsf17
| −1.690 |
−
0.139
| 0.572 |
Bpifb6
| −1.156 | −0.825 | −0.560 |
Spink4
| −1.714 | −2.376 | −1.237 |
Cd55
| −1.162 | −0.438 | −0.237 |
LOC100360169
| −1.718 | 0.232 | 1.101 |
F2
| −1.165 | −0.640 | −0.315 |
Ros1
| −1.733 | −1.914 | −1.672 |
Fabp4
| −1.170 | −0.233 | −0.334 |
Thrsp
| −1.747 | −0.067 | −0.380 |
Myom2
| −1.171 | −0.772 | −0.257 |
RatNP − 3b
| −1.761 | −2.005 | −0.576 |
RGD1305928
| −1.180 | −0.851 | −0.388 |
RGD1564563
| −1.793 | −0.383 |
−
0.092
|
Slc18a1
| −1.184 | −0.791 | −0.599 |
Mcpt8
| −1.824 | −0.324 | 0.315 |
Rgs1
| −1.184 | −0.675 | −0.604 |
Mcpt8l3
| −1.824 | −0.462 |
0.151
|
Dapl1
| −1.196 | −0.753 | −0.375 |
Adipoq
| −1.826 | 0.053 | −0.265 |
Tmem22
| −1.199 | −0.583 | −0.419 |
Mcpt9
| −1.834 | −0.384 |
0.240
|
Ccl12
| −1.212 | 0.206 | 0.243 |
Mcpt4
| −1.952 | 0.233 | 0.296 |
Siglec1
| −1.213 |
0.130
|
0.102
|
Mcpt1
| −1.966 |
−
0.014
| 0.285 |
Fcgr3a
| −1.230 |
−
0.225
|
0.136
|
Mcpt10
| −1.985 | −0.523 |
0.192
|
LOC686141
| −1.230 | −0.200 | 0.140 |
LOC100359793
| −1.987 | −0.141 | 1.137 |
LOC683753
| −1.232 | −0.795 |
−
0.121
|
Scd1
| −1.998 | 0.138 | −0.400 |
Bhlha15
| −1.233 | −0.496 | −0.067 |
Mcpt8l2
| −2.003 | −0.532 |
0.196
|
LOC688507
| −1.238 | −0.184 | 0.110 |
Pga5
| −2.086 | −1.394 | −0.775 |
H19
| −1.242 |
−
0.227
| −0.317 |
Gkn2
| −2.099 | −1.000 | −1.584 |
Cxcl11
| −1.260 | −0.859 | −0.267 |
Mcpt1l4
| −2.170 | −0.112 | 0.239 |
Rgs4
| −1.262 | −0.570 | −0.720 |
RGD1562035
| −2.179 | −0.248 |
0.176
|
Ces2c
| −1.269 | −0.944 | −0.445 |
Pzp
| −2.223 | −1.221 | −1.117 |
Fut9
| −1.270 | −0.997 | −0.334 |
Fcrls
| −2.342 | −0.529 | 0.208 |
Srpk3
| −1.272 |
−
0.242
|
−
0.042
|
Bpifb2
| −2.508 | −1.532 | −1.300 |
RGD1560949
| −1.273 | −1.471 | −1.135 |
Mcpt2
| −2.545 | −0.290 |
0.255
|
Npw
| −1.276 | −0.777 | −0.406 |
Tac4
| −2.766 | −1.731 | −1.279 |
Rbp4
| −1.283 |
−
0.026
| −0.205 |