sediment metagenome
collection_date
2020-11-01T10:00:00Z
depth
0 m - 0.01 m
elev
not collected
env_broad_scale
6 Water
env_local_scale
6.6 Estuary/coastal waters
env_medium
Sediment [ENVO_00002007]
geo_loc_name
Australia:New South Wales [GAZ_00002793]
lat_lon
31.425501 S 151.897633 E
sample_id
102.100.100/400978
source_mat_id
http://hdl.handle.net/102.100.100/400978
sample_site_location_description
HastingsRiver_S3_1
sample_submitter
Alessandra Suzzi
sample_attribution
Alessandra Suzzi
funding_agency
Australian Microbiome Initiative
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.
store_cond
frozen (-80°)
general_env_feature
Coastal (coastal terrestrial including cliff; rocky shore)
vegetation_type
Seagrass bed/meadow
sample_type
Sediment
nucl_acid_ext
Qiagen PowerSoil Kit
dna_concentration_submitter
0.01 ng/μL
dna_concentration_submitter_meth
meth_NanoPhotometer NP80
absorbance_260_280_ratio_submitter
4.167
absorbance_260_280_ratio_submitter_meth
meth_NanoPhotometer NP80
fine_sediment
3.55343510298215 %
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.
org_matter
0.339429555702019 %
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.
temp
22.81 degC
temp_meth
meth_Horiba U-50 water quality meter
url
https://data.bioplatforms.com//organization/australian-microbiome?q=sample_id:102.100.100/400978
AustralianMicrobiome_metadata_defs_url
https://github.com/AusMicrobiome/contextualdb_doc/raw/4.2.0/db_schema_definitions/db_schema_definitions.xlsx
isolation_source
sediment
isolate
102.100.100/400978_0
ncbi_txid
749907
BioSampleModel
MIMS.me
BioSampleModel
MIGS/MIMS/MIMARKS.sediment