| Accession |
PRJCA003731 |
| Title |
Over 50000 metagenomically assembled draft genomes for the human oral microbiome reveal new taxa and a novel saliva-gender specific marker |
| Relevance |
Environmental |
| Data types |
Metagenomic assembly
|
| Organisms |
human oral metagenome
metagenomes
|
| Description |
The oral cavity of each person is home for hundreds of bacterial species. While taxa for oral diseases have been often studied using culture-based as well as amplicon sequencing methods, metagenomic and genomic information remains scarce compared to the fecal microbiome. Here we provide metagenomic shotgun data for 3,346 oral metagenomics samples, and together with 808 published samples, we assemble 56,213 metagenome-assembled genomes (MAGs). 64% of the 3,589 species-level genome bins contained no publicly available genomes. The resulting genome collection is representative of samples around the world and across physiological conditions, contained many genomes from Candidate phyla radiation (CPR) which lack monoculture, and enabled discovery of new taxa such as a family Candidatus bgiplasma within order Acholeplasmataceae. Oral biomarkers were identified for rheumatoid arthritis or colorectal cancer, which would be more convenient than fecal samples. Large metagenomic data from massive samples also allowed the assembly of strains from important oral taxa such as Porphyromonas and Neisseria. Predicted oral microbial functions have the potential for drug metabolism. A conservative saliva site-gender specific unknown species genome level bin (uSGB) of g__Campylobacter_uSGB_1674 was identified as a potential saliva marker that specifically enriched in male. MWAS analysis and functional analysis showed that this male enriched uSGB was negative correlated with autoimmune disease such as T1D, RA dental and RA saliva. Thus, these data lay down a genomic framework for future inquiries of the human oral microbiome. |
| Sample scope |
Environment |
| Release date |
2020-11-27 |
| Publication |
| PubMed ID |
Article title |
Journal name |
DOI |
Year |
| 34492339
|
Over 50,000 Metagenomically Assembled Draft Genomes for the Human Oral Microbiome Reveal New Taxa
|
Genomics, Proteomics & Bioinformatics
|
10.1016/j.gpb.2021.05.001
|
2022
|
| 35225671
|
Contributions of Human-Associated Archaeal Metabolites to Tumor Microenvironment and Carcinogenesis
|
Microbiology Spectrum
|
10.1128/spectrum.02367-21
|
2022
|
|
|
| Grants |
| Agency |
program |
Grant ID |
Grant title |
| BGI
|
|
N/A
|
Human oral metagenomics assembly
|
|
|
| Submitter |
Jie
Zhu (zhujie@genomics.cn)
|
| Organization |
BGI |
| Submission date |
2020-10-22 |
