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H4_Bin_MAXBIN__028_sub_2

Identifiers
BioSample: SAMEA14073196; SRA: ERS11676429
Organism
uncultured Sphingorhabdus sp.
cellular organisms; Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingorhabdus; environmental samples
Attributes
collection date2019-08-01
broad-scale environmental contextmarine biome [ENVO:00000447]
local-scale environmental contextmicrobial feature [ENVO:00002150]
environmental mediumMacroalgae
geographic locationChina
investigation typemetagenome-assembled genome
isolation sourceMariane macroalgea Gelidium sp.
project nameMetagenomes of marine macroalgae, surrounding seawater and surrounding sediments
sample nameH4_Bin_MAXBIN__028_sub_2
ENA-CHECKLISTERC000011
ENA-FIRST-PUBLIC2023-01-18
ENA-LAST-UPDATE2023-01-18
External IdSAMEA14073196
INSDC center aliasMarine College, Shandong University
INSDC center namemarine college, shandong university
INSDC first public2023-01-18T00:18:51Z
INSDC last update2023-01-18T00:18:51Z
INSDC statuspublic
Submitter IdH4_Bin_MAXBIN__028_sub_2
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwareMEGAHIT v1.2.9
binning parametersanvi'o 6.2 default parameters, DASTOOL with --search-engine diamond
binning softwareCONCOCT, MAXBIN2,METABAT2, refined with dastool and manually with anvi'o 6.2
completeness score79.39
completeness softwarecheckM v1.1.3
contamination score2.03
geographic location (latitude)37.562
geographic location (longitude)122.121
metagenomic sourcemarine metagenome
sample derived fromERS10980525
sequencing methodIllumina Nova-PE150
taxonomic identity markermulti-marker approach (GTDB-tk v1.03, GTDB v95)
Description

Macroalgea were then put in sterile seawater and remaining bacteria were removed by ultrasonication (2x 60s, 50-60 kHz). Suspensions with removed bacteria of each sample were subsequently pooled with the previously obtained washing suspensions. Per sample, nearly 60 L of washing suspension was then filtered through 0.2 µm pore size polycarbonate membrane filters (Millipore). DNA was extracted from these filters, frozen at -80°C.

BioProject
PRJEB50838 undefined
Retrieve all samples from this project

Submission
EBI; 2023-01-19
Accession:
SAMEA14073196
ID:
32789569

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