APP-001
Metagenome or environmental
BioSampleModel
2023-11-15T00:10:20Z
ENA-FIRST-PUBLIC
2023-11-15T00:10:20Z
ENA-LAST-UPDATE
SAMN36511239
External Id
pda|e.vietsch@erasmusmc.nl
INSDC center name
2023-11-15T00:10:20Z
INSDC first public
2023-11-15T00:10:20Z
INSDC last update
public
INSDC status
SRS18332829
SRA accession
APP-001
Submitter Id
NCBI
broker name
2019-02-18
collection_date
Netherlands: Rotterdam
geo_loc_name
Homo sapiens
host
vermiform appendix fecal content
isolation_source
51.91 N 4.47 E
lat_lon
human metagenome
organism
fecal content from adult human vermiform appendix was collected instantly after resection in stool container cups and snap-frozen on dry ice instantly.
ref_biomaterial
DNA from stool samples were extracted using the PowerSoil Pro kit according to the manufacturer's protocol. DNA libraries were prepared using the Nextera XT DNA Library Preparation Kit (Illumina) and IDT Unique Dual Indexes with total DNA input of 1 ng. Genomic DNA was fragmented using a proportional amount of Illumina Nextera XT fragmentation enzyme. Unique dual indexes were added to each sample, followed by 12 cycles of PCR to construct libraries. DNA libraries were purified using AMpure magnetic Beads (Beckman Coulter) and eluted in QIAGEN EB buffer. DNA libraries were quantified using Qubit 4 fluorometer and Qubit™ dsDNA HS Assay Kit. Libraries were then sequenced on an Illumina HiSeqX platform at 2x150bp. In this primary sequencing run two samples (APP-003 and c-201) did not meet the throughput requirement, and these libraries were re-sequenced on an Illumina NextSeq2000 platform at 2x150bp.
samp_mat_process
human metagenome
scientific_name
APP-001
source_material_id