U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

Avdat soil crust MAG 55

Identifiers
BioSample: SAMEA6526637; SRA: ERS4291042
Organism
uncultured Rubrobacteraceae bacterium
cellular organisms; Bacteria; Bacillati; Actinomycetota; Rubrobacteria; Rubrobacterales; Rubrobacteraceae; 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_MAG55
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2020-05-01T17:08:18Z
ENA-LAST-UPDATE2020-02-06T14:13:43Z
External IdSAMEA6526637
INSDC center nameUNIVERSITY OF VIENNA
INSDC first public2020-05-01T17:08:18Z
INSDC last update2020-02-06T14:13:43Z
INSDC statuspublic
Submitter IdAVDCRST_MAG55
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 score67.28
completeness softwareCheckM v.1.0.7
contamination score1.75
geographic location (latitude)30.786
geographic location (longitude)34.767
metagenomic sourcesoil crust metagenome
sample derived fromERS4290232
scientific_nameuncultured Rubrobacteraceae 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 ERZ1300053

BioProject
PRJEB36534 Negev crust metagenomes
Retrieve all samples from this project

Submission
EBI; 2020-05-02
Accession:
SAMEA6526637
ID:
14817038

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
Support Center