2025-04-14
ENA first public
ERC000047
ENA-CHECKLIST
EMG
INSDC center name
public
INSDC status
ERS23996773
SRA accession
SRR25914284_concoct_12
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
metaspades_v3.15.5
assembly software
default
binning parameters
MGnify-genomes-generation-pipeline_v1.0.0
binning software
human digestive system
broad-scale environmental context
EBI-EMG
broker name
2020-04-01
collection date
52.08
%
completeness score
CheckM2_v1.0.1
completeness software
0.4
%
contamination score
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic run SRR25914284 of study SRP458547.
description
subgingival plaque
environmental medium
China
geographic location (country and/or sea)
36.00000000
DD
geographic location (latitude)
105.00000000
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
human oral metagenome
isolation_source
oral cavity
local environmental context
human oral metagenome
metagenomic source
uncultured Candidatus Saccharibacteria bacterium
organism
The aim of this study was to explore the characteristics and differences of oral microbial diversity, richness, function and metabolites in pregnant patients with periodontitis and their healthy controls (HCs). Subgingival plaque samples from 29 patients and 20 HCs were performed with shotgun metagenomic sequencing and metabolomic test. Infectious and disease-related taxa Fusobacteria, Dialister, Anaeroglobus, Catonella, Peptoanaerobacter, Centipeda, Eikenella, Peptostreptococcus, Bulleidia, Solobacterium, Capnocytophaga, Leptotrichia, Parvimonas, Filifactor, Fusobacterium, Tannerella, and Porphyromonas were significantly enriched in pregnant patients with periodontitis, while Morococcus cerebrosus, Streptococcus pneumoniae, S. salivarius, S. mitis, and S. vestibularis were abundant in HCs. During the 88 significantly different metabolic pathways, only eight pathways were higher enriched in patients while other 79 pathways including polysaccharides degradation, glycolysis, TCA cycle, amino acids biosynthesis, ribonucleotides de novo biosynthesis etc. were significantly abundant in HCs. 98 microbial metabolites, including benzene and substituted derivatives, carbohydrates and its metabolites were obviously higher in HCs, whereas 384 metabolites, including alcohol and amines, amino acid and its metabolites, oxidized lipids, free fatty acids, glycerophospholipids, nucleotide and its metabolites, organic acid and its derivatives were evidently abundant in patients, these metabolites were significantly positively associated with periodontitis-enriched species such as Eubacterium nodatum, Porphyromonas gingivalis, Tannerella forsythia, Eubacterium saphenum, Filifactor alocis etc. Our integrated results revealed significant differences in the oral microbial community, metabolic pathways, and metabolites between the pregnant patients with periodontitis and HCs, providing potential biomarkers and directions for further research and intervention in the study of pregnant patients with periodontitis.
project name
SAMN37279570
sample derived from
uncultured Candidatus Saccharibacteria bacterium
scientific_name
DNBSEQ-T7
sequencing method
multi-marker approach
taxonomic identity marker
Metagenome-assembled genome: SRR25914284_concoct_12
title