Australian Microbiome Metagenomics Novaseq 102.100.100/400873

Yongala, MGE

Dataset size is: 11.54 GiB

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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.

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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 2023-09-11
Access Control Mode date
Sequence Data Type illumina-shortread
Related Data doi:10.25953/z3tc-a185
absorbance_260_230_ratio 0.514
absorbance_260_280_ratio 1.598
alkalinity (μmol/kg) 2274.87
alkalinity_meth meth_2.2
allo (mg/m3) 1e-10
allo_meth meth_2.2
alpha_beta_car (mg/m3) 0.022
alpha_beta_car_meth meth_2.2
am_environment Marine
ammonium (μmol/L) 1e-10
ammonium_meth meth_2.2
anth (mg/m3) 1e-10
anth_meth meth_2.2
archive_ingestion_date 2023-06-14
asta (mg/m3) 1e-10
asta_meth meth_2.2
base_url https://downloads-qcif.bioplatforms.com/bpa/amd/metagenomics-novaseq/ramaciotti/BPAOPS-1416/20230602_MGE_UNSW_HG5WTDSX7/
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) 0.01
but_fuco_meth meth_2.2
cantha (mg/m3) 1e-10
cantha_meth meth_2.2
chlorophyll_a (mg/m3) 0.265
chlorophyll_a_meth meth_2.2
chlorophyll_b (mg/m3) 0.011
chlorophyll_b_meth meth_2.2
chlorophyll_c1 (mg/m3) 1e-10
chlorophyll_c1_meth meth_2.2
chlorophyll_c2 (mg/m3) 0.023
chlorophyll_c2_meth meth_2.2
chlorophyll_c3 (mg/m3) 0.009
chlorophyll_c3_meth meth_2.2
chlorophyll_ctd (mg/m3) 0.1803
chlorophyll_ctd_meth meth_2.2
collection_date 2022-06-17T22:40:00
conductivity_aqueous (S/m) 5.2442
conductivity_aqueous_meth meth_2.2
conversion_software bcl2fastq
conversion_software_version v2.20
cphlide_a (mg/m3) 0.012
cphlide_a_meth meth_2.2
data_generated 2023-06-14
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 2023-06-13
density (kg/m3) 1023.4502
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) 0.007
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
dna_concentration 5.38
dna_concentration_method qubit
dv_cphl_a (mg/m3) 0.052
dv_cphl_a_and_cphl_a (mg/m3) 0.317
dv_cphl_a_and_cphl_a_meth meth_2.2
dv_cphl_a_meth meth_2.2
dv_cphl_b (mg/m3) 0.001
dv_cphl_b_and_cphl_b (mg/m3) 0.012
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 HG5WTDSX7
folder_name 20230602_MGE_UNSW_HG5WTDSX7
fuco (mg/m3) 0.025
fuco_meth meth_2.2
funding_agency IMOS|CSIRO
general_env_feature Marine - neritic (coastal off shore)
geo_loc_name Australia:Great Barrier Reef Marine Park [GAZ:00049080]
gyro (mg/m3) 1e-10
gyro_meth meth_2.2
hex_fuco (mg/m3) 0.032
hex_fuco_meth meth_2.2
imos_site_code NRSYON
insert_size_range 350-500
keto_hex_fuco (mg/m3) 1e-10
keto_hex_fuco_meth meth_2.2
lat_lon (decimal_degrees) -19.3085 147.6184
latitude (decimal_degrees) -19.3085
library_construction_protocol Illumina DNA Prep
longitude (decimal_degrees) 147.6184
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) 0.001
neo_meth meth_2.2
nitrate (μmol/L) 1e-10
nitrate_meth meth_2.2
nitrite (μmol/L) 1e-10
nitrite_meth meth_2.2
nrs_sample_code YON20220617_0
nrs_trip_code YON20220617
nucl_acid_ext meth_3.1.9
number_of_raw_reads 79693513.0
number_pcr_cycle 6.0
omics metagenomics
oxygen_ctd_vol (mL/L) 196.7233
oxygen_ctd_vol_meth meth_2.2
perid (mg/m3) 0.002
perid_meth meth_2.2
phide_a (mg/m3) 1e-10
phide_a_meth meth_2.2
phosphate (μmol/L) 1e-10
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) 4688.0
picoeukaryotes_meth meth_2.2
pras (mg/m3) 0.001
pras_meth meth_2.2
prochlorococcus (cells/mL) 28631.0
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) 34.9243
salinity_lab (PSU) 34.916
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_202402091224.db
sample_id 102.100.100/400873
sample_integrity_warnings Other - Filters at -20 C post filtering before being transferred to -80 C next day
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_metadata_update_history NRS_controlledVocab_UPDATE_xlsx; ;AODN_AM_NRS_202303010911_FullREPLACE_xlsx;AODN_AM_NRS_202303151040_FullREPLACE_xlsx;AODN_AM_NRS_202304260934_FullREPLACE_xlsx;AODN_AM_NRS_202305031128_FullREPLACE_xlsx
sample_site_location_description Yongala
sample_submission_date 2023-06-13
sample_submitter Jodie van de Kamp [https://orcid.org/0000-0003-2167-0938]
sample_type Pelagic
secchi_depth (m) 10.0
secchi_depth_meth meth_2.2
sequencer NovaSeq 6000
silicate (μmol/L) 1.9
silicate_meth meth_2.2
source_mat_id 102.100.100/400873
store_cond meth_1.4
synechococcus (cells/mL) 69434.0
synechococcus_meth meth_2.2
temp (degC) 24.4926
temp_meth meth_2.2
ticket BPAOPS-1416
total_co2 (μmol/kg) 1967.34
total_co2_meth meth_2.2
tss (mg/L) 1.0
tss_meth meth_2.2
turbidity (NTU) 0.3132
turbidity_meth meth_2.2
url https://data.bioplatforms.com//organization/australian-microbiome?q=sample_id:102.100.100/400873
utc_date_sampled 2022-06-17
utc_time_sampled 22:40:00
viola (mg/m3) 0.001
viola_meth meth_2.2
zea (mg/m3) 0.066
zea_meth meth_2.2
zooplankton_biomass (mg/m3) 11.1748
zooplankton_biomass_meth meth_2.2int