title: Metagenome-assembled genome: binchicken_co272_2
organism: uncultured Flavobacteriaceae bacterium
description: This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs ERR3987232,ERR3987276 of study ERP120310.
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: binchicken_co272_2
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: engineered
attributes.tag: collection date
attributes.value: 2014-04-09
attributes.tag: completeness score
attributes.value: 64.18
attributes.tag: completeness software
attributes.value: CheckM2;1.0.2;default
attributes.tag: contamination score
attributes.value: 2.18
attributes.tag: environmental medium
attributes.value: engineered
attributes.tag: geographic location (country and/or sea)
attributes.value: Germany
attributes.tag: geographic location (latitude)
attributes.value: 54.18053
attributes.tag: geographic location (longitude)
attributes.value: 12.08722
attributes.tag: investigation type
attributes.value: metagenome-assembled genome
attributes.tag: isolation_source
attributes.value: metagenome
attributes.tag: local environmental context
attributes.value: metagenome
attributes.tag: metagenomic source
attributes.value: metagenome
attributes.tag: project name
attributes.value: Microplastics (PE, PS) and wooden pellets were incubated for 2 weeks along an environmental gradient from the coastal Baltic Sea to a river estuary (Warnow, Germany). The resulting microbial biofilm communities were compared using metagenomics as well as metaproteomics. Taxonomic and functional differences were found according to station and sample type. Overall, the environmental conditions had a stronger impact on the biofilm communities than the substrates themselves. Within the plastic associated communities, neither polymer degradation nor pathogenicity processes did play a relevant role. Our study represents the first approach to analyse microplastic biofilms using meta-proteogenomics.
attributes.tag: sample derived from
attributes.value: SAMEA6617240,SAMEA6617244
attributes.tag: sample name
attributes.value: binchicken_co272_2
attributes.tag: scientific_name
attributes.value: uncultured Flavobacteriaceae bacterium
attributes.tag: sequencing method
attributes.value: Illumina HiSeq 2500
attributes.tag: taxonomic identity marker
attributes.value: multi-marker approach