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. 2016 Jun 28;7:12015. doi: 10.1038/ncomms12015

Table 2. Multiple sclerosis and MS-treatment-associated taxa.

  Relative abundances
 BH corrected P values
  454
 Illumina
 HC vs MS
 HC versus Un
 Tr vs Untreated
  HC All MS Untr MS Tr MS HC All MS Untr MS Tr MS 454 MiSeq 454 MiSeq 454 MiSeq
Phyla                            
 Euryarcheota 8.65 × 10−5 5.48 × 10−4 3.36 × 10−4 3.12 × 10−4 3.66 × 10−3 1.38 × 10−2 1.17 × 10−2 8.53 × 10−3 1.38 × 10−2 2.74 × 10−2 1.88 × 10−2 n.s. n.s. n.s.
 Verrucomicrobia 8.06 × 10−3 1.65 × 10−2 2.25 × 10−2 5.80 × 10−3 5.30 × 10−2 1.07 × 10−1 1.39 × 10−1 6.18 × 10−2 1.77 × 10−5 3.66 × 10−3 8.91 × 10−4 1.41 × 10−2 n.s. n.s.
                             
Genera
 Methanobrevibacter 8.65 × 10−5 5.48 × 10−4 3.37 × 10−4 3.12 × 10−4 3.64 × 10−3 1.37 × 10−2 1.16 × 10−2 8.40 × 10−3 7.80 × 10−3 2.30 × 10−3 1.28 × 10−2 n.s. n.s. n.s.
 Akkermansia 8.06 × 10−3 1.65 × 10−2 2.25 × 10−2 5.80 × 10−3 5.29 × 10−2 1.07 × 10−1 1.39 × 10−1 6.18 × 10−2 9.00 × 10−4 3.45 × 10−2 3.20 × 10−3 3.36 × 10−2 n.s. n.s.
 Butyricimonas 1.16 × 10−3 3.75 × 10−4 2.80 × 10−4 4.11 × 10−4 1.37 × 10−3 5.81 × 10−4 4.26 × 10−4 7.21 × 10−4 3.50 × 10−3 9.50 × 10−3 1.31 × 10−2 6.70 × 10−3 n.s. n.s.
 Paraprevotella 3.57 × 10−4 2.18 × 10−5 0 3.84 × 10−5 3.47 × 10−3 4.65 × 10−4 3.44 × 10−5 7.73 × 10−4 3.45 × 10−2 8.70 × 10−3 9.52 × 10−2 1.50 × 10−3 n.s. n.s.
 Haemophilus 3.95 × 10−3 3.32 × 10−3 5.25 × 10−3 2.68 × 10−3 4.61 × 10−3 4.79 × 10−3 7.75 × 10−3 3.83 × 10−3 3.50 × 10−3 2.57 × 10−2 2.10 × 10−3 9.60 × 10−3 n.s. 6.00 × 10−4
 Slackia 1.99 × 10−3 5.50 × 10−4 5.00 × 10−4 5.56 × 10−4 1.62 × 10−4 4.77 × 10−5 6.17 × 10−5 4.40 × 10−5 3.60 × 10−3 5.21 × 10−2 2.5 × 10−5 1.35 × 10−2 6.55 × 10−2 n.s.
 Collinsella 5.54 × 10−3 4.90 × 10−3 3.61 × 103 6.10 × 103 2.27 × 103 1.52 × 10−3 1.16 × 10−3 1.89 × 10−3 n.s. n.s. 8.19 × 10−2 4.30 × 10−3 n.s. 9.20 × 10−3
 Megasphaera 1.29 × 10−3 8.18 × 10−3 2.05 × 10−2 1.57 × 10−3 1.46 × 10−3 8.67 × 10−3 2.06 × 10−2 2.45 × 10−3 9.50 × 10−3 n.s. 1.00 × 10−4 3.84 × 10−2 1.90 × 10−7 5.50 × 10−5
 Cloacibacillus 4.26 × 10−5 2.64 × 10−4 5.93 × 10−4 4.41 × 10−5 0 1.06 × 10−5 2.34 × 10−5 1.50 × 10−6 3.20 × 10−2 n.s. 4.98 × 10−2 9.20 × 10−3 6.92 × 10−2 3.45 × 10−2
 Veillonellaceae_unc 8 × 10−3 6.12 × 10−4 9.21 × 10−4 3.36 × 10−4 1.14 × 10−3 1.91 × 10−4 3.56 × 10−4 1.12 × 10−4 n.s. n.s. 8.51 × 10−2 2.38 × 10−2 5.17 × 10−2 3.45 × 10−2
 Prevotella 1.92 × 10−2 7.90 × 10−3 1.23 × 10−3 1.25 × 10−2 2.76 × 10−2 3.06 × 10−3 1.23 × 10−3 1.32 × 10−2 n.s. n.s. 7.27 × 10−2 2.80 × 10−7 9.02 × 10−2 2.80 × 10−5
 Sutterella 6.40 × 10−3 6.49 × 10−3 1.16 × 10−4 8.49 × 10−4 1.11 × 10−4 1.00 × 10−4 1.54 × 10−5 1.80 × 10−4 n.s. n.s. 7.64 × 10−2 6.80 × 10−2 4.20 × 10−3 8.70 × 10−3
 Clostridia_unc 5.05 × 10−5 1.77 × 10−4 3.17 × 10−4 5.25 × 10−5 7.51 × 10−2 8.51 × 10−2 8.51 × 10−2 9.07 × 10−2 8.51 × 10−2 n.s. 8.00 × 10−3 n.s. 1.92 × 10−2 8.60 × 10−3
 Sarcina 2.02 × 10−2 1.20 × 10−2 2.04 × 10−2 5.45 × 10−3 1.45 × 10−2 8.58 × 10−3 1.51 × 10−2 4.11 × 10−3 6.92 × 10−2 n.s. n.s. n.s. 9.00 × 10−4 2.52 × 10−2
 Mollicutes_unc 2.49 × 10−2 1.05 × 10−2 2.02 × 10−3 2.02 × 10−3 3.61 × 10−3 1.08 × 10−3 7.81 × 10−4 1.36 × 10−3 8.30 × 10−3 n.s. 3.00 × 10−7 n.s. n.s. n.s.
 Prevotellaceae_unc 4.99 × 10−3 1.37 × 10−4 7.31 × 10−6 1.07 × 10−5 2.15 × 10−3 4.22 × 10−4 1.40 × 10−4 2.37 × 10−4 3.00 × 10−10 n.s. 4.40 × 10−5 n.s. n.s. n.s.
 Holdemania 1.72 × 10−3 3.80 × 10−3 3.69 × 10−3 3.08 × 10−3 4.26 × 10−4 4.85 × 10−4 4.03 × 10−4 5.51 × 10−4 4.20 × 10−3 n.s. 4.02 × 10−2 n.s. n.s. n.s.
 Desulfovibrio 9.48 × 10−5 1.63 × 10−4 3.75 × 10−4 3.95 × 10−5 1.16 × 10−3 9.31 × 10−4 1.65 × 10−3 4.65 × 10−4 n.s. n.s. 1.58 × 10−2 n.s. 1.80 × 10−3 n.s.
 Peptococcaceae_unc 8.14 × 10−5 1.74 × 10−4 3.85 × 10−4 5.26 × 10−5 2.01 × 10−4 2.72 × 10−4 2.56 × 10−4 2.79 × 10−4 n.s. n.s 4.03 × 10−2 n.s. 3.30 × 10−2 n.s.
 Barnesiella 4.76 × 10−3 2.00 × 10−3 1.35 × 10−3 1.41 × 10−3 1.18 × 10−2 6.55 × 10−3 8.35 × 10−3 5.43 × 10−3 n.s. 1.00 × 10−4 1.60 × 10−3 n.s. n.s. n.s.
 Acidaminococcaceae_unc 3.45 × 10−3 8.43 × 10−4 1.46 × 10−4 5.01 × 10−4 5.70 × 10−4 5.82 × 10−5 4.14 × 10−5 8.51 × 10−5 n.s. 2.57 × 10−2 3.15 × 10−2 n.s. n.s. n.s.
 Megamonas 8.54 × 10−5 6.34 × 10−5 0 1.25 × 10−4 1.20 × 10−4 2.79 × 10−4 2.66 × 10−6 5.47 × 10−4 n.s. 1.80 × 10−5 n.s. 1.54 × 10−2 n.s. n.s.
 Guggenheimella — — — — 3.17 × 10−3 1.62 × 10−3 1.94 × 10−5 3.16 × 10−3 — 3.60 × 10−5 — 9.50 × 10−3 — n.s.
 Thermoplasmatales_unc — — — — 1.82 × 10−6 2.08 × 10−5 2.63 × 10−5 1.45 × 10−6 — 3.45 × 10−2 — 1.23 × 10−2 — 1.62 × 10−2
 Buttiauxella 7.77 × 10−5 2.45 × 10−4 2.01 × 10−4 2.77 × 10−4 3.32 × 10−3 1.32 × 10−3 1.41 × 10−4 2.49 × 10−3 n.s. n.s. n.s. 1.00 × 10−3 n.s. 1.90 × 10−3
 Sporanaerobacter — — — — 8.78 × 10−4 6.45 × 10−4 1.43 × 10−4 1.04 × 10−3 — n.s. — 4.20 × 10−4 — 1.00 × 10−4

HC, healthy controls; MS, multiple sclerosis; unc, unclassified; Untr, untreated MS patients; Tr, treated MS patients.

The table lists taxa that differ between HC and MS patients, between HC and Untr and between untreated and Tr, detected on two different sequencing platforms, 454 and MiSeq. Significant differences were tested by DESeq, and P values were adjusted by the Benjamini–Hochberg method. Relative abundances are listed. Values that are significant (P<0.05) on both platforms are in bold. Taxa are listed at the genus level or at their lowest possible level of classification, followed by unc. Genera that were not detected on a given platform are indicated with a (—). Non-significant P values are listed as n.s.