title: hyporheic sediment
organism: freshwater sediment metagenome
description: Sample of hyporheic sediment, taken from a riffle located upstream a combined-sewer overflow outlet spilling out in the channel of an intermittent stream
attributes.tag: ENA-FIRST-PUBLIC
attributes.value: 2024-06-22T01:06:25Z
attributes.tag: ENA-LAST-UPDATE
attributes.value: 2024-06-22T01:06:25Z
attributes.tag: External Id
attributes.value: SAMEA110176291
attributes.tag: INSDC center name
attributes.value: Microbial ecology
attributes.tag: INSDC first public
attributes.value: 2024-06-22T01:06:25Z
attributes.tag: INSDC last update
attributes.value: 2024-06-22T01:06:25Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: 1STNOCUP6HS
attributes.tag: collection date
attributes.value: 2018-06-18
attributes.tag: environment (biome)
attributes.value: watercourse (ENVO:00000029)
attributes.tag: environment (feature)
attributes.value: stream bed (ENVO_00000383)
attributes.tag: environment (material)
attributes.value: sediment
attributes.tag: geographic location (country and/or sea)
attributes.value: France
attributes.tag: geographic location (depth)
attributes.value: 0.30
attributes.tag: geographic location (elevation)
attributes.value: 314
attributes.tag: geographic location (latitude)
attributes.value: 45.743931
attributes.tag: geographic location (longitude)
attributes.value: 4.689935
attributes.tag: geographic location (region and locality)
attributes.value: Auvergne-Rh�ne-Alpes administrative region, Rh�ne department, Gr�zieu-la-Varenne town
attributes.tag: investigation type
attributes.value: mimarks-survey
attributes.tag: pcr primers
attributes.value: ILMN-PTCF2 (GTGCCGYTRTGYGGCAAGA) and ILMN-PTCF2m (GTGCCCYTRTGYGGCAAGT); ILMN-PTCR2 (ATCAKYGCGGCGCGGTCRTA) and ILMNPTCR2m (ATGAGBGCTGCCCTGTCRTA)
attributes.tag: project name
attributes.value: Ecological assessment of combined-sewer overflow practices (PRJEB53724) - Domic 2175
attributes.tag: sample name
attributes.value: 1STNOCUP6HS
attributes.tag: sampling campaign
attributes.value: before the combined-sewer overflow device was made compliant (more than 20 spill days per year)
attributes.tag: sampling transect ID
attributes.value: UP6
attributes.tag: scientific_name
attributes.value: freshwater sediment metagenome
attributes.tag: sequencing method
attributes.value: Sequencing by synthesis (Illumina MiSeq Illumina V3)
attributes.tag: target gene
attributes.value: Thiopurine S-methyltransferase (tpm)
attributes.tag: target subfragment
attributes.value: 200-235 bp, including the VPLCGK and YDRAAM conserved domains
attributes.tag: water environmental package
attributes.value: water