Marine Microbes Metagenomics 102.100.100/35265

Port Hacking, metagenome HiSeq

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This data is made available openly under a Creative Commons Attribution license. Please see the initiative Data Policy for attribution information.

Additional Info Show Blank Fields

Field Value
Geospatial Coverage

Dataset extent

Map tiles & Data by OpenStreetMap, under CC BY SA.
Resource Permissions organization_member_after_embargo:archive_ingestion_date:90:am-consortium-members
Access Control Date 2017-10-10
Access Control Mode date
Sequence Data Type illumina-shortread
Related Data doi:10.25953/z3tc-a185
alkalinity (μmol/kg) 2336.04
alkalinity_meth meth_2.2
allo (mg/m3) 0.015
allo_meth meth_2.2
alpha_beta_car (mg/m3) 0.024
alpha_beta_car_meth meth_2.2
am_environment Marine
ammonium (μmol/L) 1e-10
ammonium_meth meth_2.2
analysis_software_version bcl2fastq 2.19.1.403
analytical_platform HiSeq
anth (mg/m3) 0.003
anth_meth meth_2.2
archive_ingestion_date 2017-07-17
asta (mg/m3) 1e-10
asta_meth meth_2.2
bioplatforms_dataset_id 102.100.100/401949
bioplatforms_project Marine Microbes Project (MM)
bioplatforms_project_code AM_NRS
biotic_relationship Free-living
but_fuco (mg/m3) 0.017
but_fuco_meth meth_2.2
cantha (mg/m3) 1e-10
cantha_meth meth_2.2
chlorophyll_a (mg/m3) 0.474
chlorophyll_a_meth meth_2.2
chlorophyll_b (mg/m3) 0.151
chlorophyll_b_meth meth_2.2
chlorophyll_c1 (mg/m3) 1e-10
chlorophyll_c1_meth meth_2.2
chlorophyll_c2 (mg/m3) 0.046
chlorophyll_c2_meth meth_2.2
chlorophyll_c3 (mg/m3) 0.025
chlorophyll_c3_meth meth_2.2
chlorophyll_ctd (mg/m3) 0.9024
chlorophyll_ctd_meth meth_2.2
collection_date 2017-02-05T23:49:00
conductivity_aqueous (S/m) 5.1843
conductivity_aqueous_meth meth_2.2
contextual_data_submission_date 2017-03-16
cphlide_a (mg/m3) 0.014
cphlide_a_meth meth_2.2
data_generated 2017-07-17
data_type metagenome
database_schema_definitions_url https://github.com/AusMicrobiome/contextualdb_doc/raw/4.2.0/db_schema_definitions/db_schema_definitions.xlsx
dataset_id 102.100.100/401949
dataset_url https://downloads-qcif.bioplatforms.com/bpa/marine_microbes/raw/metagenomics/ramaciotti/BPAOPS-228/
date_of_transfer 2017-07-12
density (kg/m3) 1024.4052
density_meth meth_2.2
depth (m) 0.0
depth_lower (m) 0.0
depth_upper (m) 0.0
description MM
diadino (mg/m3) 0.007
diadino_meth meth_2.2
diato (mg/m3) 1e-10
diato_meth meth_2.2
dino (mg/m3) 1e-10
dino_meth meth_2.2
dv_cphl_a (mg/m3) 0.006
dv_cphl_a_and_cphl_a (mg/m3) 0.48
dv_cphl_a_and_cphl_a_meth meth_2.2
dv_cphl_a_meth meth_2.2
dv_cphl_b (mg/m3) 1e-10
dv_cphl_b_and_cphl_b (mg/m3) 0.151
dv_cphl_b_and_cphl_b_meth meth_2.2
dv_cphl_b_meth meth_2.2
echin (mg/m3) 1e-10
echin_meth meth_2.2
env_broad_scale 7 Other
env_local_scale 7.2.1 Open ocean water-conservation
env_medium Sea water [ENVO_00002149]
facility RAMACIOTTI
folder_name 20170608_UNSW_BPA_MM_HNFW3BCXY
fuco (mg/m3) 0.027
fuco_meth meth_2.2
funding_agency IMOS|CSIRO
general_env_feature Marine - neritic (coastal off shore)
geo_loc_name Australia:East Australian Current [GAZ_00000352]
gyro (mg/m3) 1e-10
gyro_meth meth_2.2
hex_fuco (mg/m3) 0.038
hex_fuco_meth meth_2.2
imos_site_code NRSPHB
insert_size_range 300-3000
keto_hex_fuco (mg/m3) 1e-10
keto_hex_fuco_meth meth_2.2
lat_lon (decimal_degrees) -34.1192 151.2267
latitude (decimal_degrees) -34.1192
library_construction_protocol Nextera XT
longitude (decimal_degrees) 151.2267
lut (mg/m3) 0.013
lut_meth meth_2.2
mg_dvp (mg/m3) 1e-10
mg_dvp_meth meth_2.2
ncbi_bioproject_accession PRJNA385736
ncbi_bioproject_accession_number PRJNA385736
ncbi_biosample_accession SAMN07483001
ncbi_biosample_accession_number SAMN07483001
neo (mg/m3) 0.02
neo_meth meth_2.2
nitrate (μmol/L) 1e-10
nitrate_meth meth_2.2
nrs_sample_code PHB20170205_0
nrs_trip_code PHB20170205
nucl_acid_ext meth_3.1.9
omics metagenomics
oxygen_ctd_vol (mL/L) 207.3543
oxygen_ctd_vol_meth meth_2.2
perid (mg/m3) 0.006
perid_meth meth_2.2
phide_a (mg/m3) 1e-10
phide_a_meth meth_2.2
phosphate (μmol/L) 0.08
phosphate_meth meth_2.2
phytin_a (mg/m3) 1e-10
phytin_a_meth meth_2.2
phytin_b (mg/m3) 1e-10
phytin_b_meth meth_2.2
picoeukaryotes (cells/mL) 22798.5
picoeukaryotes_meth meth_2.2int
pras (mg/m3) 0.032
pras_meth meth_2.2
prochlorococcus (cells/mL) 10011.0
prochlorococcus_meth meth_2.2int
pyrophide_a (mg/m3) 1e-10
pyrophide_a_meth meth_2.2
pyrophytin_a (mg/m3) 1e-10
pyrophytin_a_meth meth_2.2
read_length 250bp
salinity (PSU) 35.629
salinity_lab (PSU) 35.617
salinity_lab_meth meth_2.2
salinity_meth meth_2.2
samp_collect_device meth_1.4
samp_mat_process meth_1.4
samp_size (L) 2.0
samp_vol_we_dna_ext (L) 2.0
sample_attribution IMOS|CSIRO
sample_database_file AM_db_v4.2_202508201559.db
sample_extraction_id 35265_1
sample_id 102.100.100/35265
sample_integrity_warnings WARNING: Storage or transport conditions compromised
sample_metadata_ingest_date 2022-11-29 17:13:14
sample_metadata_ingest_file AODN_AM_NRS_ALL_to_SEP2022_202211291332_GOLD_FullREPLACE_xlsx
sample_site_location_description Port Hacking
sample_submission_date 2017-07-12
sample_submitter Jodie van de Kamp [https://orcid.org/0000-0003-2167-0938]
sample_type Pelagic
sample_volume_notes Other - not recorded in field log sheets [assume 2 L as per protocol]
secchi_depth (m) 11.0
secchi_depth_meth meth_2.2
sequencer HiSeq 2500
silicate (μmol/L) 0.6
silicate_meth meth_2.2
source_mat_id 102.100.100/35265
store_cond meth_1.4
submitter Jodie van de Kamp
synechococcus (cells/mL) 38464.5
synechococcus_meth meth_2.2int
temp (degC) 23.0343
temp_meth meth_2.2
ticket BPAOPS-228
total_co2 (μmol/kg) 2037.37
total_co2_meth meth_2.2
tss (mg/L) 0.7
tss_meth meth_2.2int
turbidity (NTU) 0.2438
turbidity_meth meth_2.2
url https://data.bioplatforms.com//organization/australian-microbiome?q=sample_id:102.100.100/35265
utc_date_sampled 2017-02-05
utc_time_sampled 23:49:00
viola (mg/m3) 0.018
viola_meth meth_2.2
work_order 20008
zea (mg/m3) 0.046
zea_meth meth_2.2
zooplankton_biomass (mg/m3) 8.8691
zooplankton_biomass_meth meth_2.2int