metagenomic assembly

Identifiers: BioSample: SAMN15784323; Sample name: MAG_NIOZ-UU76

Organism: Planctomycetota bacterium
cellular organisms; Bacteria; PVC group; Planctomycetota; unclassified Planctomycetota

Package: MIMAG: metagenome-assembled genome, water; version 6.0

Attributes

collection date	2013-06-09/2013-06-10
depth	50-2000 m
broad-scale environmental context	marine
local-scale environmental context	Black Sea
environmental medium	saline water
geographic location	not applicable
latitude and longitude	42.896667 N 30.678333 E
sample collection device or method	McLane 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 column	2107 m
isolation source	Suspended Particulate Matter (SPM) from the Black Sea western gyre
derived from	This 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.
isolate	NIOZ-UU76
sample type	metagenomic assembly
metagenome source	marine metagenome
analysis_project_type	MAG
assembly_software	metaSPAdes v3.8.0
taxonomic_classification_software	Bin Annotation Tool (BAT) v5.1.2 with reference databases dated 2020-07-22.
CheckM_marker_lineage	k__Bacteria (UID203)
completeness	33.55
contamination	3.51
strain_heterogeneity	33.33
assembly_quality	Low Quality Draft
genome_size_(bp)	2175844
#_scaffolds	631
#_contigs	639
N50_(scaffolds)	3324
N50_(contigs)	3297
mean_scaffold_length_(bp)	3448
mean_contig_length_(bp)	3402
longest_scaffold_(bp)	10269
longest_contig_(bp)	10269
GC	53.8
GC_std_(scaffolds_>_1kbp)	2.72
completeness_software	CheckM v1.0.7 in lineage specific workflow
completeness_approach	marker gene based
bin_parameters	kmer+coverage
binning_software	MetaBAT v0.32.4
reassembly_post_binning	no
MAG_coverage_software	BWA-MEM v0.7.12-r1039
metagenomic	1
environmental-sample	1

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:: SAMN15784323
ID:: 15784323

BioProject Nucleotide

BioSample

National Center for Biotechnology Information

Result Filters

Send to:

metagenomic assembly

Supplemental Content

Related information

Search details

Recent activity