U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

Avdat soil crust MAG 91

Identifiers
BioSample: SAMEA6526673; SRA: ERS4291078
Organism
uncultured Sphingomonadaceae bacterium
cellular organisms; Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; environmental samples
Attributes
collection date2017-06
broad-scale environmental contextsubtropical desert biome
local-scale environmental contextsoil biocrust
environmental mediumsoil biocrust
geographic locationIsrael
investigation typemetagenome-assembled genome
isolation sourceBiological soil crust from Avdat LTER, Negev Desert, Israel
project namePRJEB36534
sample nameAVDCRST_MAG91
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2020-05-01T17:08:18Z
ENA-LAST-UPDATE2020-02-06T14:13:44Z
External IdSAMEA6526673
INSDC center nameUNIVERSITY OF VIENNA
INSDC first public2020-05-01T17:08:18Z
INSDC last update2020-02-06T14:13:44Z
INSDC statuspublic
Submitter IdAVDCRST_MAG91
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaSPAdes;kmer set 21,31,41,51,61,71,81,91,101,111,121,127, otherwise default parameters
binning parametersdifferential coverage across 5 samples, 4-mer frequencies
binning softwareMetaBAT v. 2.12.1, MaxBin v. 2.2.4, Metawatt v. 3.5.3 summarized via DASTool v. 1.1.0 and refined in Anvi’O v. 5.2
completeness score78.79
completeness softwareCheckM v.1.0.7
contamination score8.46
geographic location (latitude)30.786
geographic location (longitude)34.767
metagenomic sourcesoil crust metagenome
sample derived fromERS4290268
scientific_nameuncultured Sphingomonadaceae bacterium
sequencing methodIllumina HiSeq 2500
taxonomic identity markerGenome Taxonomy Database classifier (120 protein markers)
Description

This sample represents a MAG from the metagenomic samples ERS4282875,ERS4282876,ERS4282877,ERS4282878,ERS4282879. Binned from assembly ERZ1300056

BioProject
PRJEB36534 Negev crust metagenomes
Retrieve all samples from this project

Submission
EBI; 2020-05-02
Accession:
SAMEA6526673
ID:
14817074

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
Support Center