. 2018 Jun 1;10(6):708. doi: 10.3390/nu10060708

Table A1.

Changes in relative abundances in neurodegenerative diseases.

Phylum and Family	Genus (Species, OTU)	PD	MSA	NMO	MS	ALS	Reference
Unclassified bacteria							PD: [39]
Firmicutes
Unspecified							AD: [56], PD: [38], MSA: [47], ALS: [45]
unclassified							PD: [39], NMO: [58]
unclassified							NMO: [58]
91otu15265	o1 = one OTU						NMO, o1: [58]
Lactobacillaceae	Unspec.						PD: [41], [35], [36]
	Unspec.						PD: [43]
	Lactobacillus (m = mucosae, g = gasseri, c = casei, f = fermentum, re = reuteri, ru = ruminis), r = rogosae	+			+		PD:, [35] +m: [34], +g, c, f, re, ru: [42], MS: [66], r: [57]
Enterococcaceae	Unspec.						PD: [36], [37]
	Unspec.						PD: [43]
	Enterococcus						PD: [37]
Ruminococcaceae	Unspecified O1 = one OTU	+					AD: [55] PD:, o1: [35], [41] MSA: [47], MS: [75] ALS: [46]
	unclassified					^	PD: [35], NMO: [58], ALS: [71] detected differences in certain unculturable Ruminococcaceae in ALS patients but did not describe the scale and direction.
	Ruminococcus b = bromii c = callidus o38 = 38 OTUs	+					PD, b: [34], NMO: [58], MS, o38: [65]
	Ruminococcus b = bromii c = callidus o38 = 38 OTUs	+					PD: [37], c: [34] ALS: [46]
	Papillibacter cinnamivorans						PD: [34]
	Faecalibacterium p = prausnitzi o2 = two OTU o57 = 57 OTU	+			+		PD: +o2: [35] [34], [37], p [43] MS, +p: [57], o57: [65]. ALS: [45]
Lachnospiraceae	Unspec.						PD: [35], MSA: [47] MS: [67], ALS: [45],
	Unclassified o3= three OTU	+		+			PD, o3: [35], NMO, o1: [58]
	Lachnospira,						ALS: [45]
	Roseburia o2 = two OTU	+					PD: [38], +o2: [35], MS: [57]
	Coprococcus, e = eutactus o1 = one OTU	+					PD: [38], e: [34], o1: [35], NMO: [58]
	Blautia, g = glucerasea, p = producta o1 = one OTU	+		+			AD: [56], PD: [38], [37] +o1: [35], g: [34], MSA: [47] NMO, p,o1: [58], MS: [66]
	Dorea, l = longicatea	+					PD: +l [34], MSA: [47], MS: [66] ALS: [45]
	Anaerostipes, h = hadrus				+		MS, +h: [57], ALS: [45]
Catabacteriaceae	Catabacter, h = honkogenesis	+					PD, +h: [34]
Clostridiaceae	Unspec.						AD: [56] MSA: [47]
	SMB53						AD: [56]
	Anaerotruncus						PD: [40]
	Clostridium, p = perfringens s = saccharolyticum	+		+			AD: [56], PD, s: [42], [39], NMO, p: [58], MS: [57]
Eubacteriaceae	Eubacterium, r = rectale, b = biforme	+^			+		PD, +b: [39] ^ symbolizes, that Eubacterium is classified as Erysipelotrichoceae in the original publication, MS, r: [57],
Eubacteriaceae	[Candidatus Stoquefichus massiliensis]						PD: [34]
Erysipelotrichaceae	Unspec.						PD: [37]
Erysipelotrichaceae	cc115						AD: [56]
Christensenellaceae	unspecified						PD: [35]
	unclassified						PD: [35]
	Christensenella, m = minuta	+					PD, +m: [34], MS: [67]
Gemellaceae	Unspec						AD: [56]
Gemellaceae	Gemella						AD: [56]
Mogibacteriaceae	Unspec.						AD: [56]
Oscillospiraceae	Oscillospira						PD: [34], [38],
Oscillospiraceae	Oscillobacter						ALS: [45]
Streptococcaceae	Unspec.						PD: [37]
Streptococcaceae	Streptococcus t/s = thermophilus/salivarius				+		PD: [37], MS, t/s: [57]
Peptococcus	Desulfotomaculum sp. CYP1						MS: [57]
Peptostreptococcaceae	Unspec.						AD: [56]
Acidaminococcaceae	Phascolarctobacterium						AD: [56]
Acidaminococcaceae	Acidaminococcus						PD: [37]
Veillonellaceae	Unspec.						PD: [37]
	Megamonas, f = funiformis YIT11815						PD: [37],
	Megamonas, f = funiformis YIT11815				+		MS, f: [57]
	Megasphera						PD: [37]
	Dialister						AD: [56]
Tissierellaceae	Tissierella						PD: [35]
Turicibacteraceae	unspec.						AD: [56]
Turicibacteraceae	Turicibacter						AD: [56]
Tenericutes
Unclassified							NMO: [58]
Acholeplasmataceae	Acholeplasma						NMO: [58]
Acholeplasmataceae	[Candidatus Phytoplasma]						NMO: [58]
Melainabacteria
OTU_171 (98.9% identity to MelB1,57)							PD, o1: [40]
Actinobacteria
Unspec.							AD: [56], PD: [37], MS: [67]
Bifidobacteriaceae	Unspec.						AD: [56], PD: [35]
Bifidobacteriaceae	Bifidobacterium						AD: [56], PD: [34], [35], [43], MS: [67]
Coriobacteraceae	Unspec.						PD: [37]
	Adlercreutzia						AD: [56], MS: [66]
	Collinsella						MS: [66], [64]
	Slackia						MS: [64]
	Eggerthella lenta						MS: [57]
Corynebacteriaceae	Corynebacterium						NMO: [58]
Fibrobacters
unclassified							NMO: [58]
Gemmatimonades
91otu1 0683	o1 = one OTU						NMO, o1: [58]
Bacteroidetes
Unspec.							AD: [56] PD: [38] MSA: [47], ALS: [45]
Unspec.							PD: [43], [37]
unclassified							NMO: [58]
Bacteroidaceae	Unspec. o37= 37 OTUs				+		AD: [56] MS, o37: [65]
	Bacteroides f = fragilis, m = massiliensis, cc = coprocola, cp = coprophilus, d = dorei, p = phlebeus, s = stercoris		+				AD: [56], PD: [38], MSA, f: [70], NMO: [58], MS: [67]
		+					PD, +m, c, d, p: [34], f: [42], MS, s, cc, cp: [57], ALS: [45]
Flavobacteriaceae	Flavobacterium						NMO: [58]
Prevotellaceae	Unspec						PD: [41]
	Prevotella, co = copri, cl = clara, M = melaninogenica o1 = one OUT, o2 = two OTU	+	+	+	+		PD,+ co: [39], [34] MSA, cl: [70] NMO, co, o2: [58] MS, +co: [57], [64], ALS: [45]
		+		+			PD, o1: [35] NMO, m: [58]
Porphyromonadaceae	Unspec.						MSA: [47],
	Unclass.						NMO: [58]
	Parabacteroides						MS: [66]
	Parabacteroides						PD: [35], MS: [67]
	Barnesiella						PD: [36]
	Butyricimonas						MS: [64]
Rikenellaceae	Unspec						AD: [56], MSA: [47]
Rikenellaceae	Alistipes, s = shahii	+					AD: [56], PD, s: [39]
Sphingobacteriaceae	Pedobacter						MS: [66]
Elusimicrobia
91otu12128	o1 = one OTU						NMO, o1: [58]
Plantomycetes
unclassified							NMO: [58]
Verrucomicrobia
Unspec							PD: [40], MS: [64]
Verrucomicrobiaceae	Unspec.						PD: [35] [41] [38] [40]
Akkermansiaceae	Akkermansia, m = muciplila	+					PD: [35], [38], +m: [39] [40], MS: [64], [67]
[Chthoniobacteraceae]	DA101 = one OTU						NMO, o1: [58]
Acidobacteria
91oto412	One OTU						NMO, o1: [58]
Spirochaetes
Spirochaetaceae	Treponema socranskii						NMO: [58]
Proteobacteria
unclassified							PD: [38], [37]
Alpha-Proteobacteria
Unclassified							NMO: [58]
Bradyrhizobiaceae	unspec						PD: [41]
Brucellaceae	Mycoplana						MS: [66]
OTU_469, o1=one OTU							PD, o1: [40]
Beta-Proteobacteria
Sutterellaceae	Sutterella, w = wadsworthensis				+		MS, w: [57]
Burkholderiacea	Ralstonia						MSA: [47]
Oxalobacteraceae	Unspec.						MSA: [47]
Gamma-Proteobacteria
Unclassified							NMO: [58]
Chromatiaceae	o1 = one OTU.						NMO, o1: [58]
Coxiellaceae	o1 = one OTU						NMO, o1: [58]
Enterobacteriaceae	Unspec.						PD: [43], [37]
	Unclassified						NMO: [58]
	Escherichia						ALS: [45]
	Escherichia/Shigella						PD: [37]
	Proteus						PD: [37]
Moraxellaceae	Unpec.						PD: [37]
Moraxellaceae	Acinetobacter						PD: [37]
Pasteurellaceae	Unspec.						PD: [35]
Pseudomonadaceae	Pseudomonas						MS: [66]
Delta-Proteobacteria
Desulfovibrionaceae	Bilophila						AD: [56]
Desulfovibrionaceae	Desulfovibrio						MS: [67]
KSB3
unclassified							NMO: [58]
91otu6419	97otu28635 = one OTU						NMO, o1: [58]

AD: Alzheimer’s disease; PD: Parkinson’s disease; MSA: multiple sclerosis; NMO: neuromyelitis optica; MS: multiple sclerosis; ALS: amyotrophic lateral sclerosis; o1,2,3, symbolise that the change is concerning one, two, three or more operational taxonomic units (OTUs); letter = abbreviation for the species in which the change was observed; Small letters followed by a + indicate, that the change was observed for genus and species; Changes in relative abundance compared to the control, are colour coded. Green: Higher abundance in disease condition. Orange: Lower abundance in disease condition. Uncoloured: No study detected a significant change in abundance; - means no significant change in PD compared to HC was found with the chosen methodological approach. There are three intensity nuances for each colour to show how many of the included study found the same difference and direction. Light: one study; Middle: two studies; Dark: three or more studies. Coloured fields containing a + indicates, that detailed information concerning species type is found in the other columns.