Metagenome-assembled genome: SRP200132_co1_726
uncultured Pseudomonadales bacterium
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs SRR9179560,SRR9179562 of study SRP200132.
ENA first public
2024-12-11
INSDC center name
CMR
INSDC status
public
Submitter Id
SRP200132_co1_726
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaSPAdes;3.15.4;default
binning parameters
coverage and kmer
binning software
SemiBin2;2.0.2;default
broad-scale environmental context
terrestrial
collection date
2018-09
completeness score
98.62
completeness software
CheckM2;1.0.2;default
contamination score
0.21
environmental medium
terrestrial
geographic location (country and/or sea)
Switzerland
geographic location (latitude)
47.426944
geographic location (longitude)
8.518333
investigation type
metagenome-assembled genome
isolation_source
soil metagenome
local environmental context
soil biome
metagenomic source
soil metagenome
project name
Bacteriophages are the most numerous biological entities on earth and play a crucial role in shaping microbial communities. Unfortunately, the study of soil viromes lags far behind any other ecological model system, due to the heterogeneous soil matrix that rises major technical difficulties in the extraction process. We have analysed by high-throughput metagenomics the viral and bacterial fractions of several agricultural soils from one of the oldest arable long-term field experiment in Europe (ZOFE, Zurich Organic Fertilization Experiment)), which implements different fertilization practices. We have also analysed the optimization of protocols for extraction of the viral fraction from the same soil matrix preceding metagenomic analysis such that the protocol can equally be harnessed for phage isolation. This bioproject contains several viral and bacterial metagenomes.
sample derived from
SAMN11866225,SAMN11866228
sample name
SRP200132_co1_726
scientific_name
uncultured Pseudomonadales bacterium
sequencing method
NextSeq 500
taxonomic identity marker
multi-marker approach