Over 50,000 Metagenomically Assembled Draft Genomes for the Human Oral Microbiome Reveal New Taxa
- Author:
Zhu JIE
1
,
2
;
Tian LIU
;
Chen PEISHAN
;
Han MO
;
Song LIJU
;
Tong XIN
;
Sun XIAOHUAN
;
Yang FANGMING
;
Lin ZHIPENG
;
Liu XING
;
Liu CHUAN
;
Wang XIAOHAN
;
Lin YUXIANG
;
Cai KAIYE
;
Hou YONG
;
Xu XUN
;
Yang HUANMING
;
Wang JIAN
;
Kristiansen KARSTEN
;
Xiao LIANG
;
Zhang TAO
;
Jia HUIJUE
;
Jie ZHUYE
Author Information
1. BGI-Shenzhen,Shenzhen 518083,China
2. Shenzhen Key Laboratory of Human Commensal Microorganisms and Health Research,BGI-Shenzhen,Shenzhen 518083,China
- Keywords:
Metagenomics;
Human oral microbiome;
Metagenome-assembly genome;
Genome catalog;
Gender
- From:
Genomics, Proteomics & Bioinformatics
2022;20(2):246-259
- CountryChina
- Language:Chinese
-
Abstract:
The oral cavity of each person is home to hundreds of bacterial species.While taxa for oral diseases have been studied using culture-based characterization as well as amplicon sequencing,metagenomic and genomic information remains scarce compared to the fecal microbiome.Here,using metagenomic shotgun data for 3346 oral metagenomic samples together with 808 published samples,we obtain 56,213 metagenome-assembled genomes(MAGs),and more than 64％of the 3589 species-level genome bins(SGBs)contain no publicly available genomes.The resulting genome collection is representative of samples around the world and contains many genomes from candi-date phyla radiation(CPR)that lack monoculture.Also,it enables the discovery of new taxa such as a genus Candidatus Bgiplasma within the family Acholeplasmataceae.Large-scale metagenomic data from massive samples also allow the assembly of strains from important oral taxa such as Por-phyromonas and Neisseria.The oral microbes encode genes that could potentially metabolize drugs.Apart from these findings,a strongly male-enriched Campylobacter species was identified.Oral sam-ples would be more user-friendly collected than fecal samples and have the potential for disease diagnosis.Thus,these data lay down a genomic framework for future inquiries of the human oral microbiome.
