Table 4 MS Microbial Candidate List Derived from the Deep Sequencing Data.

From: Spectrum of Microbial Sequences and a Bacterial Cell Wall Antigen in Primary Demyelination Brain Specimens Obtained from Living Patients

Phyluma Familya Genusa MS Mapped Readsb Control Mapped Readsb MS Specimens Increasedc Pathogend Ecologye
Proteobacteria Nitrosomonadaceae Nitrosospira 5262 0 2 no Soil bacterium
Actinobacteria Coriobacteriaceae Atopobium 3562 90 2 no Vaginal anaerobic bacterium
Fusobacteria Fusobacteriaceae Fusobacterium 3230 56 2 yes Oral anaerobic bacterium
Basidiomycota Ustilaginaceae Ustilago 1668 6 4 no Corn smut fungus
Proteobacteria Pasteurellaceae Aggregatibacter 1166 214 1 yes Oral anaerobic bacterium
Gemmatimonadetes Gemmatimonadaceae Gemmatimonas 848 30 2 no Soil bacterium
Bacteroidetes Bacteroidaceae Bacteroides 834 2 5 yes Gut anaerobe
Proteobacteria Nitrosomonadaceae Nitrosomonas 700 10 2 no Soil and water bacterium
Fusobacteria Leptotrichiaceae Leptotrichia 650 38 2 yes Oral anaerobic bacterium
Viruses Podoviridae Luz24likevirus 590 0 2 no Bacteriophage (virus)
Verrucomicrobia Akkermansiaceae Akkermansia 508 0 1 no Gut anaerobic bacterium
Firmicutes Streptococcaceae Lactococcus 488 6 4 no Anaerobic fermenting bacterium
Nitrospirae Nitrospiraceae Nitrospira 406 4 2 no Waterborne bacterium
Bacteroidetes Flavobacteriaceae Capnocytophaga 358 12 4 yes Oral anaerobic bacterium
Actinobacteria Rubrobacteraceae Rubrobacter 346 2 5 no Thermophilic bacterium
Actinobacteria Bifidobacteriaceae Bifidobacterium 318 52 1 no Vaginal and gut anaerobic bacterium
Firmicutes Leuconostocaceae Leuconostoc 314 30 1 yes Anaerobic bacterium
Proteobacteria Moraxellaceae Psychrobacter 308 50 1 yes Aerobic bacterium
Firmicutes Lactobacillaceae Pediococcus 270 0 1 no Anaerobic fermenting bacterium
Proteobacteria Aeromonadaceae Aeromonas 246 26 2 yes Waterborne anaerobic bacterium
Proteobacteria Moraxellaceae Moraxella 244 18 2 yes Oral aerobic bacterium
Actinobacteria Acidothermaceae Acidothermus 214 36 3 no Thermophilic bacterium
Proteobacteria Hyphomicrobiaceae Hyphomicrobium 196 10 2 no Soil and water anaerobic bacterium
Proteobacteria Ectothiorhodospiraceae Thioalkalivibrio 162 2 4 no Extremophile bacterium
Firmicutes Aerococcaceae Aerococcus 128 2 4 yes Facultatitive Anaerobic bacterium
Plantomycetes Planctomycetaceae Rhodopirellula 120 22 1 no Marine bacterium
Proteobacteria Aeromonadaceae Tolumonas 112 4 3 no Anaerobic soil bacterium
Firmicutes Staphylococcaceae Macrococcus 102 10 2 no Skin bacterium
Proteobacteria Rhodospirillaceae Azospirillum 100 22 1 no Plant bacterium
  1. In order to qualify as an MS Candidate Microbe at the genus level, at least one specimen from the MS group had read-pair mappings to this taxa significantly increased (q < 0.05) over the control group with MAPQ values ≥ 10 (84 separate genera). The MS microbial genus candidates shown had at least 100 mapped reads among all the specimens in the MS group (29 genera).
  2. aAs classified in NCBI Taxonomy. Phyla are listed for bacterial and fungal candidates, but not viruses.
  3. bTotal number of the mapped reads to the taxa derived from the entire MS (N = 12) or Control group (N = 15).
  4. cNumber of MS specimens (out of 12) where read mappings to this taxa were significantly increased (q < 0.05) compared to the control group (N = 15).
  5. dCommonly recognized as a human pathogen.
  6. eAs described by MicrobeWiki (https://microbewiki.kenyon.edu/index.php/MicrobeWiki), List of Prokaryotic names with Standing in Nomenclature (LPSN, http://www.bacterio.net), UniProt (https://www.uniprot.org), and other online sources.
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