title: Metagenome-assembled genome: SRP200132_co1_198
organism: uncultured Candidatus Saccharibacteria bacterium
description: This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs SRR9179560,SRR9179562 of study SRP200132.
attributes.tag: ENA first public
attributes.value: 2024-12-11
attributes.tag: INSDC center name
attributes.value: CMR
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: SRP200132_co1_198
attributes.tag: assembly quality
attributes.value: Many fragments with little to no review of assembly other than reporting of standard assembly statistics
attributes.tag: assembly software
attributes.value: metaSPAdes;3.15.4;default
attributes.tag: binning parameters
attributes.value: coverage and kmer
attributes.tag: binning software
attributes.value: MetaBAT2;2.15;default
attributes.tag: broad-scale environmental context
attributes.value: terrestrial
attributes.tag: collection date
attributes.value: 2018-09
attributes.tag: completeness score
attributes.value: 96.29
attributes.tag: completeness software
attributes.value: CheckM2;1.0.2;default
attributes.tag: contamination score
attributes.value: 6.02
attributes.tag: environmental medium
attributes.value: terrestrial
attributes.tag: geographic location (country and/or sea)
attributes.value: Switzerland
attributes.tag: geographic location (latitude)
attributes.value: 47.426944
attributes.tag: geographic location (longitude)
attributes.value: 8.518333
attributes.tag: investigation type
attributes.value: metagenome-assembled genome
attributes.tag: isolation_source
attributes.value: soil metagenome
attributes.tag: local environmental context
attributes.value: soil biome
attributes.tag: metagenomic source
attributes.value: soil metagenome
attributes.tag: project name
attributes.value: 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.
attributes.tag: sample derived from
attributes.value: SAMN11866225,SAMN11866228
attributes.tag: sample name
attributes.value: SRP200132_co1_198
attributes.tag: scientific_name
attributes.value: uncultured Candidatus Saccharibacteria bacterium
attributes.tag: sequencing method
attributes.value: NextSeq 500
attributes.tag: taxonomic identity marker
attributes.value: multi-marker approach