Background
Methods
Search strategy
Data synthesis and quality control
Study | Respiratory microbiota | Method | Sequencing region of 16 s RNA | |||
---|---|---|---|---|---|---|
TB patients | Healthy Controls | |||||
Phyla | Genera | Phyla | Genera | |||
Cheung et al |
Proteobacteria*, Bacteroidetes*, Actinobacteria, Fusobacteria, Firmicutes
| Neisseria* Streptococcus Prevotella*, Lactococcus, Pseudomonas, Enterobacteria |
Proteobacteria Bacteroidetes,
ActinobacteriaFusobacteria
Firmicutes*
| Streptococcus Neisseria Prevotella, Lactococcus*, Pseudomonas*, Enterobacter* | Roche/454 | V1-V2 |
Wu et al | Firmicutes* Actinobacteria*, Spirochaetes*, Bacteroidetes, Fusobacteria, Cyanobacteria−Thermi−Acidobacteria− | Prevotella, LeptotrichiaTreponema, Catonella
Neisseria, Coprococcus
Streptococcus*,Gramulicatella*, Pseudomonas*, Haloplasma*,Bergeyella**
Sharpea**
| Firmicutes, Actinobacteria Spirochaetes
Bacteroidetes* Fusobacteria*
Cyanobacteria
−
Thermi
−
Acidobacteria-
| Prevotella*, Leptotrichia*Treponema*Catonella*
Coprococcus*
Streptococcus
Neisseria, Gramulicatella Pseudomonas, Haloplasma
| Roche/454 | V1-V2 |
Krishna et al |
Firmicutes*, Actinobacteria*
Bacteriodes, Proteobacteria, Fusobacteria
|
Streptococcus, Neisseria, Veillonella
Unclassified-Gammaproteobacteria
Haemophilus, Actinobacillus
Rothia *, Leuconosto* Lactobacillus*, Corynebacterium*, Atopobium*, Bacillus*, Acinetobacter* |
Firmicutes, Actinobacteria
Bacteriodes, Proteobacteria*
Fusobacteria* |
Streptococcus
, Neisseria, Veillonella Unclassified-Gammaproteobacteria
Haemophilus, Actinobacillus*, Rothia
Leuconostoc, Lactobacillus
Corynebacterium, Atopobium, Bacillus
Acinetobacter*
| Ion Torrent | V6-V7 |
Cui et al |
Firmicutes, Bacteroidetes, ProteobacteriaCrenarchaeota Actinobacteria, Chlamydiae
Chloroflexi, Cyanobacteria/Chloroplast
Deinococcus-Thermus*, Elusimicrobia, Euryarchaeota
SR1, Spirochaetes, Synergistetes, Tenericute
Fusobacteria, Aquificae**
Caldiserica**, Gemmatimonadetes**, Lentisphaerae** Planctomycetes**
Thermodesulfobacteria**, Verrucomicrobia** |
Phenylobacterium* Stenotrophomona*, Cupriavidus*
Sphingomonas*, Mobilicoccus* Brevundimonas* Brevibacillus*
Diaphorobacter*
Thermus**, Pelomonas**
Methylobacterium**, Comamonas**, Lactobacillus** Thermobacillus**, Aur tidibacter**, Lapillicoccus**
Devriesea**
|
Firmicutes
Bacteroidetes*ProteobacteriaCrenarchaeota Actinobacteria
Chlamydiae, Chloroflexi, Cyanobacteria/Chloroplast
Deinococcus-Thermus Elusimicrobia, Euryarchaeota
SR1, Spirochaetes, Synergistetes, Tenericute
Fusobacteria*
| Phenylobacterium, Stenotrophomonas
Cupriavidus
SphingomonasMobilicoccusBrevundimonasBrevibacillus
Diaphorobacter
| Roche/454 | V3 |
Botero et al |
Firmicutes, BacteroidetesProteobacteria, Actinobacteria*. Fusobacteria, Spirochaetes
SR1, Gemmatimonadetes**
Chloroflexi, Acidobacteria**
Tenericutes, Unclassified bacteria
Ascomycota, Unclassified fungi
|
Firmicutes, BacteroidetesProteobacteria, Actinobacteria, Fusobacteria, Spirochaetes
SR1, Chloroflexi
Tenericutes, Unclassified bacteria, Ascomycota
Unclassified fungi
| Roche/454 | V1-V2 |