Metagenome-assembled genome: SRR3580189_bin.64_Met... - BioSample

Metagenome-assembled genome: SRR3580189_bin.64_MetaBAT_v2.12.1_MAG

Identifiers: BioSample: SAMEA9695305; SRA: ERS7419550

Organism: uncultured Campylobacteraceae bacterium
cellular organisms; Bacteria; Pseudomonadati; Campylobacterota; Epsilonproteobacteria; Campylobacterales; Campylobacteraceae; environmental samples

Attributes

collection date	2013-07-27
broad-scale environmental context	aquatic
local-scale environmental context	marine
environmental medium	water
geographic location	USA
investigation type	metagenome-assembled genome
isolation source	marine metagenome
project name	In this study, we simulate the Deepwater Horizon oil spill in a laboratory system, with the indigenous seawater from the spill site and depth, Macondo oil, and dispersant (Corexit 9500) used during the spill. Successive samples were taken for chemical and metagenomic studies. From the assembled contigs, we isolated the dominant Oceanospirillaceae genome. This study showed that the succession of the microbial community coincide with the genomes’ use of hydrocarbon substrates. In general, n-alkane users will rise first, succeeded by mono-ring aromotics, then by multi-ring aromatics. The succession pattern was probably controlled by nutrient availability and the metabolic rates that the group of substrates can sustain. Multiple genomes of Colwellia, Cycloclasticus, members of Gamma-Proteobacteria, flavor bacteria and Rhodobacteria were also resolved, providing insights on potential cooperation or competition in the environment among closely related bacteria.
sample name	SRR3580189_bin.64_MetaBAT_v2.12.1_MAG
ENA first public	2021-09-16
ENA last update	2021-09-16
ENA-CHECKLIST	ERC000047
External Id	SAMEA9695305
INSDC center alias	EMG
INSDC center name	EMG
INSDC first public	2021-09-16T16:25:22Z
INSDC last update	2021-09-16T16:25:22Z
INSDC status	public
Submitter Id	SRR3580189_bin.64_MetaBAT_v2.12.1_MAG
assembly quality	Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software	metaspadesv3.11.1
binning parameters	Default
binning software	MetaBAT v2.12.1
broker name	EMG broker account, EMBL-EBI
completeness score	95.73
completeness software	CheckM
contamination score	4.74
geographic location (latitude)	28.74
geographic location (longitude)	-88.37
metagenomic source	marine metagenome
sample derived from	SAMN04961126
sequencing method	Illumina HiSeq 2500
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR3580189 of study SRP075617.

BioProject: PRJEB37807 Uncultured novel prokaryotic genomes associated with with aquatic environments
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Submission: EBI; 2021-09-25

Accession:: SAMEA9695305
ID:: 21734612

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Metagenome-assembled genome: SRR3580189_bin.64_MetaBAT_v2.12.1_MAG

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