Respiratory Microbial Gene Catalogue
Introduction
Imbalanced respiratory microbiota have been demonstrated in pediatric pneumonia(PP), representing the most important causes of morbidity and mortality in Chinese children.
Here, we construct an integrated respiratory microbial gene catalogue(RMGC) based on metagenomic sequencing data of 334 respiratory samples in 171 healthy and 76 pneumonia children, as well as published respiratory bacterial genomes and small-sized RMGC in Human Microbiome Project(HMP). We also provide an easily accessible database to facilitate the utilization of the catalogue, including free download of the gene sets and online analysis pipeline.
Data summary
| #ORFs | Total length (bp) | Average length (bp) | Max length | Min length | % of genes assigned to a phylum | % of genes assigned to a genus | % of genes assigned to a species | % of genes with KO annotation | % annotated on eggNOG |
|---|---|---|---|---|---|---|---|---|---|
| 2,245,343 | 1,708,322,497 | 760 | 32,241 | 100 | 57.08% | 50.92% | 27.52% | 38.01% | 53.95% |
Metagenomic analysis. Well done is better than well said. Wanna know why?
Microbiome composition
| Phylum | Relative abundance(%) |
|---|---|
| Firmicutes | 29.9228 |
| Unclassified | 23.0920 |
| Bacteroidetes | 21.9115 |
| Proteobacteria | 12.5073 |
| Actinobacteria | 9.4388 |
| Fusobacteria | 3.0082 |
| Others | 0.1194 |
| Genus | Relative abundance(%) |
|---|---|
| Unclassified | 28.4830 |
| Prevotella | 18.7926 |
| Streptococcus | 13.2282 |
| Veillonella | 5.8526 |
| Neisseria | 5.5187 |
| Rothia | 3.5913 |
| Actinomyces | 3.2882 |
| Staphylococcus | 2.6362 |
| Haemophilus | 2.3148 |
| Leptotrichia | 1.4989 |
| Peptoniphilus | 1.2330 |
| Acinetobacter | 1.1911 |
| Granulicatella | 1.1634 |
| Fusobacterium | 1.1000 |
| Atopobium | 0.8463 |
| Species | Relative abundance(%) |
|---|---|
| Unclassified | 55.5028 |
| Prevotella melaninogenica | 3.50319 |
| Prevotella histicola | 2.5744 |
| Prevotella sp. | 2.35983 |
| Rothia mucilaginosa | 2.13796 |
| Streptococcus parasanguinis | 1.95179 |
| Prevotella pallens | 1.80462 |
| Streptococcus sp. | 1.78913 |
| Staphylococcus aureus | 1.63875 |
| Neisseria subflava | 1.28294 |
| Veillonella atypica | 1.27725 |
| Streptococcus pseudopneumoniae | 1.1943 |
| Neisseria flavescens | 1.09725 |
| Prevotella salivae | 0.858959 |
| Acinetobacter baumannii | 0.753785 |
| Phylum | Relative abundance(%) |
|---|---|
| Firmicutes | 56.4767 |
| Proteobacteria | 21.1863 |
| Unclassified | 10.9035 |
| Actinobacteria | 5.5105 |
| Bacteroidetes | 5.4922 |
| Tenericutes | 0.3619 |
| Others | 0.0689 |
| Genus | Relative abundance(%) |
|---|---|
| Staphylococcus | 45.9709 |
| Acinetobacter | 15.9561 |
| Unclassified | 10.2326 |
| Streptococcus | 5.3611 |
| Corynebacterium | 4.0519 |
| Bacteroides | 3.3639 |
| Mastadenovirus | 2.7745 |
| Prevotella | 1.4743 |
| Blautia | 1.1702 |
| Ralstonia | 0.9084 |
| Haemophilus | 0.7787 |
| Klebsiella | 0.7625 |
| Veillonella | 0.7130 |
| Escherichia | 0.6237 |
| Dolosigranulum | 0.4774 |
| Species | Relative abundance(%) |
|---|---|
| Staphylococcus aureus | 27.8951 |
| Unclassified | 19.3576 |
| Staphylococcus epidermidis | 7.6282 |
| Staphylococcus haemolyticus | 5.1094 |
| Acinetobacter sp. DUT-2 | 3.7700 |
| Acinetobacter calcoaceticus | 3.3158 |
| Acinetobacter baumannii | 3.1810 |
| Acinetobacter pittii | 2.8416 |
| Bacteroides vulgatus | 2.0428 |
| Human mastadenovirus B | 1.9342 |
| Corynebacterium accolens | 1.9174 |
| Streptococcus pneumoniae | 1.6433 |
| [Ruminococcus] gnavus | 1.0971 |
| Staphylococcus hominis | 1.0664 |
| Klebsiella pneumoniae | 0.7455 |
| Phylum | Relative abundance(%) |
|---|---|
| Firmicutes | 92.5185 |
| Unclassified | 5.0874 |
| Proteobacteria | 1.0917 |
| Tenericutes | 0.7414 |
| Bacteroidetes | 0.2451 |
| Actinobacteria | 0.1823 |
| Others | 0.1336 |
| Genus | Relative abundance(%) |
|---|---|
| Staphylococcus | 75.8607 |
| Bacillus | 14.5496 |
| Unclassified | 5.4258 |
| Streptococcus | 0.9159 |
| Mycoplasma | 0.7408 |
| Mastadenovirus | 0.5650 |
| Haemophilus | 0.2816 |
| Pseudomonas | 0.2682 |
| Enterobacter | 0.1519 |
| Bacteroides | 0.1289 |
| Microcystis | 0.1123 |
| Gemella | 0.0999 |
| Prevotella | 0.0914 |
| Escherichia | 0.0647 |
| Faecalibacterium | 0.0613 |
| Species | Relative abundance(%) |
|---|---|
| Staphylococcus aureus | 51.5443 |
| Staphylococcus epidermidis | 20.0261 |
| Bacillus cereus | 9.9344 |
| Unclassified | 9.6185 |
| Bacillus anthracis | 1.7322 |
| Bacillus wiedmannii | 1.1291 |
| Staphylococcus hominis | 0.7597 |
| Mycoplasma pneumoniae | 0.7314 |
| Human mastadenovirus B | 0.5399 |
| Staphylococcus schweitzeri | 0.3953 |
| Bacillus thuringiensis | 0.3327 |
| Staphylococcus caprae | 0.2892 |
| Haemophilus influenzae | 0.2455 |
| Streptococcus agalactiae | 0.2181 |
| Streptococcus pneumoniae | 0.2148 |
Membership
