Metagenome-assembled genome: SRP200020_co5_355

Identifiers: BioSample: SAMEA117291913; SRA: ERS22359448

Organism: uncultured Methylococcaceae bacterium
cellular organisms; Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Methylococcales; Methylococcaceae; environmental samples

Attributes

broad-scale environmental context	aquatic
collection date	2014-11-01
environmental medium	aquatic
geographic location	Venezuela
investigation type	metagenome-assembled genome
isolation source	seawater metagenome
project name	A persistent chemoautotrophy maximum is present in many anoxic basins at the sulfidic layer’s upper boundary, but the microbiology and biogeochemistry that control this feature are poorly understood. In 13 of 31 cruises to the Cariaco Basin the particulate organic carbon pool was enriched in 13C (δ13CPOC as high as -16‰) within the oxic/sulfidic transitional layer compared to photic zone values (-23 to -26‰) and 13C enrichments persisted to depth. During these “heavy” cruises, dissolved O2 and [NO3- + NO2-] concentrations and their computed fluxes to the oxic/sulfidic interface were significantly lower than during “light” cruises. Cruises with isotopically heavy POC were more common between 2013 and 2015 when suspended particles below the photic zone tended to be nitrogen-rich compared to later cruises. Within the chemoautotrophic layer, nitrogen-rich particles (POC/PN< 10) were more likely to be 13C-enriched than nitrogen-poor particles among all cruises, implying these samples were dominated by living cells and fresh detritus rather than laterally transported or extensively decomposed biogenic debris. Dissolved inorganic carbon (DIC) assimilation during “heavy” cruises (n = 3) was faster and occurred deeper than during “light” cruises (n = 2). Metagenomics data from the chemoautotrophic layer during two cruises support prevalence of microorganisms carrying RuBisCO form II genes, which encode a carbon fixation enzyme that discriminates less against heavy isotopes than most other carbon fixation enzymes. Metatranscriptomics data confirm that form II RuBisCO genes were more highly expressed during both cruises and at depths where essential reactants coexist.
sample name	SRP200020_co5_355
ENA first public	2024-12-11
ENA-CHECKLIST	ERC000047
INSDC center name	CMR
INSDC status	public
Submitter Id	SRP200020_co5_355
assembly quality	Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software	metaSPAdes;3.15.4;default
binning parameters	coverage and kmer
binning software	SemiBin2;2.0.2;default
completeness score	99.83
completeness software	CheckM2;1.0.2;default
contamination score	0.09
geographic location (latitude)	10.617
geographic location (longitude)	-65.167
local environmental context	seawater biome
metagenomic source	seawater metagenome
sample derived from	SAMN11854482,SAMN11854485
scientific_name	uncultured Methylococcaceae bacterium
sequencing method	NextSeq 500
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs SRR9166044,SRR9166051 of study SRP200020.

BioProject: PRJEB82487 Bin Chicken Rare Biosphere Genomes
Retrieve all samples from this project

Submission: EBI; 2024-12-12

Accession:: SAMEA117291913
ID:: 45802723

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Metagenome-assembled genome: SRP200020_co5_355

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