Table S2.

Relative abundance of bacterial taxa impacted by GOS and dairy consumption

GroupPhylumClassGenusRelative abundance, % ± SD
Day 0Day 36Day 66
Cluster IV: enhanced by GOS but suppressed when GOS feeding was haltedActinobacteriaActinobacteriaBifidobacterium*0.001 ± 0.0070.007 ± 0.0420.001 ± 0.007
CoriobacteriiaCoriobacteriaceae_other20.009 ± 0.0300.023 ± 0.0670.004 ± 0.013
Collinsella*0.066 ± 0.1910.069 ± 0.2020.021 ± 0.067
BacteroidetesBacteroidiaPrevotella*8.786 ± 14.2579.023 ± 16.3818.103 ± 18.231
Bacteroidales_other10.38 ± 0.7870.4 ± 0.7660.38 ± 2.048
FirmicutesBacilliGranulicatella*0.001 ± 0.0120.012 ± 0.0840.001 ± 0.006
Oscillospira0.467 ± 0.6400.535 ± 1.3000.317 ± 0.589
ErysipelotrichiCatenibacterium0.082 ± 0.3530.907 ± 3.8220.236 ± 1.538
ProteobacteriaAlphaproteobacteriaRF32_other0.038 ± 0.0900.099 ± 0.3890.016 ± 0.090
DeltaproteobacteriaDesulfovibrio*0.002 ± 0.0130.017 ± 0.0630.005 ± 0.017
TenericutesRF3ML615J-28_other*0.020 ± 0.1610.713 ± 4.2890.001 ± 0.008
Cluster III: suppressed by GOS but not by dairy (or may be enhanced by dairy)FirmicutesBacilliTuricibacter0.110 ± 0.4070.008 ± 0.0350.010 ± 0.035
ClostridiaClostridiaceae_other10.039 ± 0.1920.011 ± 0.0640.012 ± 0.034
Lachnospiraceae_other13.149 ± 4.0302.583 ± 3.2254.034 ± 4.843
Clostridiaceae_other20.106 ± 0.7090.018 ± 0.0610.026 ± 0.105
Roseburia0.191 ± 0.5200.071 ± 0.1310.168 ± 0.257
[Ruminococcus]0.309 ± 0.6340.164 ± 0.5610.278 ± 0.780
Peptostreptococcaceae_other0.045 ± 0.2030.007 ± 0.0320.010 ± 0.035
Phascolarctobacterium0.749 ± 1.3160.624 ± 0.9971.432 ± 2.945
FusobacteriaFusobacteriaFusobacterium0.809 ± 5.2550.124 ± 0.3180.144 ± 0.997
Cluster II: long-term enhanced by GOSFirmicutesClostridiaLachnospiraceae_other2*10.792 ± 14.98112.150 ± 18.74614.270 ± 18.282
Faecalibacterium*2.504 ± 3.4133.025 ± 4.2083.500 ± 4.491
Christensenellaceae_other*0.099 ± 0.3530.341 ± 1.2321.384 ± 7.622
ErysipelotrichiBulleidia*0.022 ± 0.1220.209 ± 1.2610.235 ± 1.320
BacilliLactobacillus*0.041 ± 0.1900.071 ± 0.2200.117 ± 0.675
TenericutesMollicutesRF39_other*0.004 ± 0.0170.005 ± 0.0240.048 ± 0.230
Cluster I: suppressed by GOS and by dairy consumptionActinobacteriaCoriobacteriiaCoriobacteriaceae_other10.056 ± 0.4450.015 ± 0.0710.003 ± 0.021
FirmicutesBacilliStreptococcus0.141 ± 0.5060.091 ± 0.2530.038 ± 0.089
ClostridiaClostridium0.392 ± 1.0380.220 ± 0.5180.108 ± 0.202
Lachnospira*1.306 ± 4.5011.136 ± 3.1990.562 ± 1.133
Anaerotruncus*0.008 ± 0.0240.007 ± 0.0270.001 ± 0.007
Ruminococcus1.361 ± 1.7901.137 ± 1.8820.903 ± 1.569
Dialister*0.673 ± 2.1090.546 ± 1.0770.475 ± 1.117
[Mogibacteriaceae]_other0.061 ± 0.1170.044 ± 0.0950.019 ± 0.037
ErysipelotrichiHoldemania0.207 ± 0.3620.154 ± 0.2850.043 ± 0.114
[Eubacterium]4.066 ± 6.5993.119 ± 4.7770.605 ± 2.108
ProteobacteriaGammaproteobacteriaEnterobacteriaceae_other0.026 ± 0.1190.018 ± 0.1110.008 ± 0.030
  • Taxa between square brackets are correctly identified but taxonomically misplaced species, in need of a formal taxonomic revision.

  • * FDR-corrected P value >0.05.