Australian Microbiome Metagenomics Novaseq 102.100.100/400745

Darwin, MGE

Dataset size is: 8.77 GiB

Log in or Register to access resource
 
 

 

Data and Resources

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 2022-07-05
Access Control Mode date
Sequence Data Type illumina-shortread
Related Data doi:10.25953/z3tc-a185
absorbance_260_230_ratio 0.067
absorbance_260_280_ratio 1.841
alkalinity (μmol/kg) 2130.69
alkalinity_meth meth_2.2
allo (mg/m3) 0.026
allo_meth meth_2.2
alpha_beta_car (mg/m3) 0.041
alpha_beta_car_meth meth_2.2
am_environment Marine
ammonium (μmol/L) 0.07
ammonium_meth meth_2.2
anth (mg/m3) 1e-10
anth_meth meth_2.2
archive_ingestion_date 2022-04-08
asta (mg/m3) 0.014
asta_meth meth_2.2
base_url https://downloads-qcif.bioplatforms.com/bpa/amd/metagenomics-novaseq/ramaciotti/BPAOPS-1216/20220401_MGE_UNSW_HKJWLDSX3/
bioplatforms_dataset_id 102.100.100/401949
bioplatforms_project Australian Microbiome Initiative (AM)
bioplatforms_project_code AM_NRS
biotic_relationship Free-living
but_fuco (mg/m3) 0.007
but_fuco_meth meth_2.2
cantha (mg/m3) 1e-10
cantha_meth meth_2.2
chlorophyll_a (mg/m3) 0.844
chlorophyll_a_meth meth_2.2
chlorophyll_b (mg/m3) 0.048
chlorophyll_b_meth meth_2.2
chlorophyll_c1 (mg/m3) 0.031
chlorophyll_c1_meth meth_2.2
chlorophyll_c2 (mg/m3) 0.057
chlorophyll_c2_meth meth_2.2
chlorophyll_c3 (mg/m3) 1e-10
chlorophyll_c3_meth meth_2.2
chlorophyll_ctd (mg/m3) 0.5581
chlorophyll_ctd_meth meth_2.2
collection_date 2021-03-03T22:30:00
conductivity_aqueous (S/m) 5.4141
conductivity_aqueous_meth meth_2.2
conversion_software bcl2fastq
conversion_software_version v2.20
cphlide_a (mg/m3) 1e-10
cphlide_a_meth meth_2.2
data_generated 2022-04-08
data_type MGE
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
date_of_transfer 2022-04-06
density (kg/m3) 1019.542
density_meth meth_2.2
depth (m) 0.0
depth_lower (m) 0.0
depth_upper (m) 0.0
description NovaSeq data package
diadino (mg/m3) 0.03
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
dna_concentration 1.42
dna_concentration_method Qubit
dv_cphl_a (mg/m3) 1e-10
dv_cphl_a_and_cphl_a (mg/m3) 0.844
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) 0.048
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_code ramaciotti
flowcell HKJWLDSX3
folder_name 20220401_MGE_UNSW_HKJWLDSX3
fuco (mg/m3) 0.291
fuco_meth meth_2.2
funding_agency IMOS|CSIRO
general_env_feature Marine - neritic (coastal off shore)
geo_loc_name Australia:Beagle Gulf [GAZ:00051048]
gyro (mg/m3) 1e-10
gyro_meth meth_2.2
hex_fuco (mg/m3) 0.012
hex_fuco_meth meth_2.2
imos_site_code NRSDAR
insert_size_range 350-500
keto_hex_fuco (mg/m3) 1e-10
keto_hex_fuco_meth meth_2.2
lat_lon (decimal_degrees) -12.4 130.768
latitude (decimal_degrees) -12.4
library_construction_protocol Illumina DNA Prep
longitude (decimal_degrees) 130.768
lut (mg/m3) 1e-10
lut_meth meth_2.2
mg_dvp (mg/m3) 1e-10
mg_dvp_meth meth_2.2
neo (mg/m3) 0.007
neo_meth meth_2.2
nitrate (μmol/L) 0.8
nitrate_meth meth_2.2
nitrite (μmol/L) 0.42
nitrite_meth meth_2.2
nrs_sample_code DAR20210303_0
nrs_trip_code DAR20210303
nucl_acid_ext meth_3.1.9
number_of_raw_reads 59759260.0
number_pcr_cycle 8.0
omics metagenomics
oxygen_ctd_vol (mL/L) 178.3032
oxygen_ctd_vol_meth meth_2.2
perid (mg/m3) 1e-10
perid_meth meth_2.2
phide_a (mg/m3) 1e-10
phide_a_meth meth_2.2
phosphate (μmol/L) 0.25
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) 2166.5
picoeukaryotes_meth meth_2.2
pras (mg/m3) 0.017
pras_meth meth_2.2
prochlorococcus (cells/mL) 1228.0
prochlorococcus_meth meth_2.2
pyrophide_a (mg/m3) 1e-10
pyrophide_a_meth meth_2.2
pyrophytin_a (mg/m3) 1e-10
pyrophytin_a_meth meth_2.2
salinity (PSU) 32.1145
salinity_lab (PSU) 32.228
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) 0.8
samp_vol_we_dna_ext (L) 0.8
sample_attribution IMOS|CSIRO
sample_database_file AM_db_v4.2_202402091224.db
sample_id 102.100.100/400745
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 Darwin
sample_submission_date 2022-04-06
sample_submitter Jodie van de Kamp [https://orcid.org/0000-0003-2167-0938]
sample_type Pelagic
sample_volume_notes High biomass/particulate matter
secchi_depth (m) 2.0
secchi_depth_meth meth_2.2
sequencer NovaSeq 6000
silicate (μmol/L) 7.0
silicate_meth meth_2.2
source_mat_id 102.100.100/400745
store_cond meth_1.4
synechococcus (cells/mL) 39939.0
synechococcus_meth meth_2.2
temp (degC) 30.0797
temp_meth meth_2.2
ticket BPAOPS-1216
total_co2 (μmol/kg) 1884.36
total_co2_meth meth_2.2
tss (mg/L) 15.5
tss_meth meth_2.2
turbidity (NTU) 5.3569
turbidity_meth meth_2.2
url https://data.bioplatforms.com//organization/australian-microbiome?q=sample_id:102.100.100/400745
utc_date_sampled 2021-03-03
utc_time_sampled 22:30:00
viola (mg/m3) 0.004
viola_meth meth_2.2
zea (mg/m3) 0.06
zea_meth meth_2.2
zooplankton_biomass (mg/m3) 301.3775
zooplankton_biomass_meth meth_2.2int