Metagenome-assembled genome: ERR1578670_bin.35_CON... - BioSample

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Metagenome-assembled genome: ERR1578670_bin.35_CONCOCT_v1.1_MAG

Identifiers: BioSample: SAMEA14083630; SRA: ERS11686764

Organism: uncultured Clostridia bacterium
cellular organisms; Bacteria; Bacillati; Bacillota; Clostridia; environmental samples

Attributes

collection date	2013-01-01
broad-scale environmental context	Host-associated
local-scale environmental context	Human
environmental medium	Digestive system
geographic location	China
investigation type	metagenome-assembled genome
isolation source	human gut metagenome
project name	Coronary heart disease (CHD) is top risk factor for health in modern society, causing high mortality rate each year. However, there is no reliable way for early diagnosis and prevention of CHD so far. So study the mechanism of CHD and development of novel biomarkers is urgently needed. In this study, metabolomics and metagenomics technology are applied to discover new biomarkers from plasma and urine of 59 CHD patients and 43 healthy controls and trace their origin. We identify GlcNAc-6-P which has good diagnostic capability and can be used as potential biomarkers for CHD, together with mannitol and 15 plasma cholines. These identified metabolites show significant correlations with clinical biochemical indexes. Meanwhile, GlcNAc-6-P and mannitol are potential metabolites originated from intestinal microbiota. Association analysis on species and function levels between intestinal microbes and metabolites suggest a close correlation between Clostridium sp. HGF2 and GlcNAc-6-P, Clostridium sp. HGF2, Streptococcus sp. M143, Streptococcus sp. M334 and mannitol. These suggest the metabolic abnormality is significant and gut microbiota dysbiosis happens in CHD patients.
sample name	ERR1578670_bin.35_CONCOCT_v1.1_MAG
ENA-CHECKLIST	ERC000047
ENA-FIRST-PUBLIC	2023-01-03
ENA-LAST-UPDATE	2023-01-03
External Id	SAMEA14083630
INSDC center alias	EBI
INSDC center name	European Bioinformatics Institute
INSDC first public	2023-01-03T00:33:46Z
INSDC last update	2023-01-03T00:33:46Z
INSDC status	public
Submitter Id	ERR1578670_bin.35_CONCOCT_v1.1_MAG
assembly quality	Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software	metaspadesv3.10.0
binning parameters	Default
binning software	CONCOCT v1.1
broker name	EMG broker account, EMBL-EBI
completeness score	97.99
completeness software	CheckM
contamination score	0.89
geographic location (latitude)	55.676098
geographic location (longitude)	12.568337
metagenomic source	human gut metagenome
sample derived from	SAMEA4378279
scientific_name	uncultured Clostridia bacterium
sequencing method	Illumina HiSeq 2000
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR1578670 of study ERP016813.