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metagenomic assembly

Identifiers
BioSample: SAMN15784217; Sample name: MAG_NIOZ-UU141
Organism
Chloroflexota bacterium
cellular organisms; Bacteria; Terrabacteria group; Chloroflexota; unclassified Chloroflexota
Package
MIMAG: metagenome-assembled genome, water; version 6.0
Attributes
collection date2013-06-09/2013-06-10
depth50-2000 m
broad-scale environmental contextmarine
local-scale environmental contextBlack Sea
environmental mediumsaline water
geographic locationnot applicable
latitude and longitude42.896667 N 30.678333 E
sample collection device or methodMcLane WTS_LV in situ pumps, pre-combusted glass fiber filters with 142 mm diameter and 0.7 um pore size
sample storage temperature-80 degrees C
size fraction selected> 0.7 um
total depth of water column2107 m
isolation sourceSuspended Particulate Matter (SPM) from the Black Sea western gyre
derived fromThis BioSample is a metagenomic assembly obtained from the 15 individual BioSamples: SAMN15667690, SAMN15667691, SAMN15667692, SAMN15667693, SAMN15667694, SAMN15667695, SAMN15667696, SAMN15667697, SAMN15667698, SAMN15667699, SAMN15667700, SAMN15667701, SAMN15667702, SAMN15667703, SAMN15667704.
isolateNIOZ-UU141
sample typemetagenomic assembly
metagenome sourcemarine metagenome
analysis_project_typeMAG
assembly_softwaremetaSPAdes v3.8.0
taxonomic_classification_softwareBin Annotation Tool (BAT) v5.1.2 with reference databases dated 2020-07-22.
CheckM_marker_lineagek__Bacteria (UID203)
completeness15.53
contamination0.00
strain_heterogeneity0.00
assembly_qualityLow Quality Draft
genome_size_(bp)539907
#_scaffolds157
#_contigs157
N50_(scaffolds)3308
N50_(contigs)3308
mean_scaffold_length_(bp)3438
mean_contig_length_(bp)3438
longest_scaffold_(bp)8468
longest_contig_(bp)8468
GC54.9
GC_std_(scaffolds_>_1kbp)1.50
completeness_softwareCheckM v1.0.7 in lineage specific workflow
completeness_approachmarker gene based
bin_parameterskmer+coverage
binning_softwareMetaBAT v0.32.4
reassembly_post_binningno
MAG_coverage_softwareBWA-MEM v0.7.12-r1039
metagenomic1
environmental-sample1
Description

MAG generated with MetaBAT v0.32.4 from the cross-assembly of 15 shotgun metagenomes across the Black Sea water column. Taxonomic classification is based on Bin Annotation Tool (BAT) v5.1.2 with reference databases dated 2020-07-22.

Keywords: GSC:MIxS;MIMAG:6.0

BioProject
PRJNA649215 marine metagenome
Retrieve all samples from this project

Submission
Utrecht University, F. A. Bastiaan von Meijenfeldt; 2020-08-11
Accession:
SAMN15784217
ID:
15784217

BioProject Nucleotide

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