Australian Microbiome Amplicons A16S 102.100.100/401032 K9JKC
Dataset size is: 74.11 MiB
Data and Resources
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Geospatial Coverage |
Dataset extentMap tiles & Data by OpenStreetMap, under CC BY SA.
|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:90:am-consortium-members |
| Access Control Date | 2022-07-25 |
| Access Control Mode | date |
| Sequence Data Type | illumina-amplicons |
| Related Data | doi:10.25953/vp5c-pk95 |
| absorbance_260_280_ratio_submitter | 1.235 |
| absorbance_260_280_ratio_submitter_meth | meth_NanoPhotometer NP80 |
| am_environment | Marine |
| amplicon | A16S |
| analysis_software | MiSeq Reporter |
| analysis_software_version | 2.6.2.3 |
| analytical_platform | MiSeq |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/amd/amplicons-miseq/a16s/BPAOPS-1231/20220325_AM_A16S_UNSW_K9JKC_renamed/ |
| bioplatforms_dataset_id | 102.100.100/401931 |
| bioplatforms_project | Australian Microbiome Initiative (AM) |
| bioplatforms_project_code | AM0015 |
| ccg_jira_ticket | BPAOPS-1231 |
| collection_date | 2020-11-01T13:00:00 |
| comments | 401032_A16_K9JKC_CGATCAGT-TCTCTCCG |
| data_type | A16S |
| database_schema_definitions_url | https://github.com/AusMicrobiome/contextualdb_doc/raw/4.2.0/db_schema_definitions/db_schema_definitions.xlsx |
| dataset_id | 102.100.100/401931 |
| date_of_transfer | 2022-04-26 |
| date_of_transfer_to_archive | 2022-04-28 |
| depth (m) | 0.0 |
| depth_lower (m) | 0.01 |
| depth_upper (m) | 0.0 |
| description | MiSeq data package |
| dilution_used | Neat |
| dna_concentration_submitter (ng/μL) | 5.25 |
| dna_concentration_submitter_meth | meth_NanoPhotometer NP80 |
| env_broad_scale | 6 Water |
| env_local_scale | 6.6 Estuary/coastal waters |
| env_medium | Sediment [ENVO_00002007] |
| fine_sediment (%) | 5.1375266445 |
| fine_sediment_meth | meth_1. Transfer sediments into pre-weighed labelled aluminium trays. 2. Place in drying oven at 60°C for 24hrs. 3. Using a sediment shaker for 1 min; shake sample through 4mm; 2mm; 1mm; 500um; 250um; 125um and 63um size sieves. 4. Transfer sediments retained on each sieve into pre-weighed weighing boats. 5. Weigh each fraction and calculate % fines. |
| flow_id | K9JKC |
| folder_name | 20220325_AM_A16S_UNSW_K9JKC_renamed |
| funding_agency | Australian Microbiome Initiative |
| general_env_feature | Coastal (coastal terrestrial including cliff; rocky shore) |
| geo_loc_name | Australia:New South Wales |
| index | CGATCAGT-TCTCTCCG |
| lat_lon (decimal_degrees) | -33.142324 151.591711 |
| latitude (decimal_degrees) | -33.142324 |
| longitude (decimal_degrees) | 151.591711 |
| nucl_acid_ext | Qiagen PowerSoil Kit |
| omics | Genomics |
| org_matter (%) | 0.8768792811 |
| org_matter_meth | meth_1. Transfer sediment to pre-weighed labelled aluminium tray. 2. Dry in oven at 60°C for 24hrs. 3. Grind to a fine powder using a mixing mill (MM200). 4. Place samples in pre-weighed labelled crucibles and transfer to muffle furnace at 105°C for 24 hrs. 5. Remove samples; allow to cool and weigh. 6.Return crucibles to muffle furnace at 430°C for a further 24 hours. 7. Remove samples; cool and weigh. Calculate % organic matter. |
| pass_fail | P |
| pcr_plate_name | SUZ9963_A16S_P1_firststep |
| reads | 155763.0 |
| samp_collect_device | meth_Sterile 15ml tube |
| samp_mat_process | Samples frozen at -80°C until DNA extraction. For DNA extraction samples were defrosted and a spatula (sterilised with 10% bleach) was used to weigh 0.25g of sediment into bead beating tubes. |
| sample_attribution | Alessandra Suzzi |
| sample_database_file | AM_db_v4.2_202402091224.db |
| sample_id | 102.100.100/401032 |
| sample_metadata_ingest_date | 2024-02-01 13:24:34 |
| sample_metadata_ingest_file | AM0015Huggett_Sample_Submission_sheet_20210916_schema_v3_vocab_2_0_3_SUZ9963_edited2_xlsx |
| sample_site_location_description | LakeMacquarie_Gwandalan5 |
| sample_submitter | Alessandra Suzzi |
| sample_type | Sediment |
| sequencing_facility | Ramaciotti |
| source_mat_id | 102.100.100/401032 |
| store_cond | frozen (-80°) |
| target | A16 |
| temp (degC) | 22.31 |
| temp_meth | meth_Horiba U-50 water quality meter |
| ticket | BPAOPS-1231 |
| url | https://data.bioplatforms.com//organization/australian-microbiome?q=sample_id:102.100.100/401032 |
| utc_date_sampled | 2020-11-01 |
| utc_time_sampled | 13:00:00 |
| vegetation_type | Seagrass bed/meadow |