Australian Microbiome Metagenomics Novaseq 102.100.100/141124

Darwin, MGE

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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 2021-09-06
Access Control Mode date
Sequence Data Type illumina-shortread
Related Data doi:10.25953/z3tc-a185
absorbance_260_230_ratio 0.074
absorbance_260_280_ratio 1.69
alkalinity (μmol/kg) 2254.76
alkalinity_meth meth_2.2
allo (mg/m3) 0.019
allo_meth meth_2.2
alpha_beta_car (mg/m3) 0.034
alpha_beta_car_meth meth_2.2
am_environment Marine
ammonium (μmol/L) 0.13
ammonium_meth meth_2.2
anth (mg/m3) 1e-10
anth_meth meth_2.2
archive_ingestion_date 2021-06-09
asta (mg/m3) 1e-10
asta_meth meth_2.2
base_url https://downloads-qcif.bioplatforms.com/bpa/amd/metagenomics-novaseq/ramaciotti/BPAOPS-1080/20210604_AM_MGE_UNSW_H72YYDSX2/
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) 1e-10
but_fuco_meth meth_2.2
cantha (mg/m3) 1e-10
cantha_meth meth_2.2
chlorophyll_a (mg/m3) 0.622
chlorophyll_a_meth meth_2.2
chlorophyll_b (mg/m3) 0.058
chlorophyll_b_meth meth_2.2
chlorophyll_c1 (mg/m3) 0.046
chlorophyll_c1_meth meth_2.2
chlorophyll_c2 (mg/m3) 0.045
chlorophyll_c2_meth meth_2.2
chlorophyll_c3 (mg/m3) 1e-10
chlorophyll_c3_meth meth_2.2
chlorophyll_ctd (mg/m3) 0.5254
chlorophyll_ctd_meth meth_2.2
collection_date 2019-02-13
conductivity_aqueous (S/m) 5.6853
conductivity_aqueous_meth meth_2.2
conversion_software bcl2fastq2
conversion_software_version v2.20
cphlide_a (mg/m3) 1e-10
cphlide_a_meth meth_2.2
data_generated 2021-06-09
data_type MGE
database_schema_definitions_url https://github.com/AusMicrobiome/contextualdb_doc/raw/4.0.0/db_schema_definitions/db_schema_definitions.xlsx
dataset_id 102.100.100/401949
date_of_transfer 2021-06-08
density (kg/m3) 1021.0973
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) 0.018
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 1.348
dna_concentration_method picogreen
dv_cphl_a (mg/m3) 1e-10
dv_cphl_a_and_cphl_a (mg/m3) 0.622
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) 0.058
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 H72YYDSX2
folder_name 20210608_AM_MGE_UNSW_H72YYDSX2
fuco (mg/m3) 0.211
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) 1e-10
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) 1e-10
neo_meth meth_2.2
nitrate (μmol/L) 4.0
nitrate_meth meth_2.2
nitrite (μmol/L) 0.86
nitrite_meth meth_2.2
nrs_sample_code DAR20190213_2130_0
nrs_trip_code DAR20190213_2130
nucl_acid_ext meth_3.1.9
number_of_raw_reads 58207448.0
number_pcr_cycle 5.0
omics metagenomics
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) 0.58
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) 11965.0
picoeukaryotes_meth meth_2.2int
pras (mg/m3) 1e-10
pras_meth meth_2.2
prochlorococcus (cells/mL) 1786.0
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
salinity (PSU) 34.0774
salinity_lab (PSU) 34.072
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) 0.5
samp_vol_we_dna_ext (L) 0.5
sample_attribution IMOS|CSIRO
sample_database_file AM_db_v4.0_202303211058.db
sample_id 102.100.100/141124
sample_metadata_ingest_date 2022-11-29_00:00:00
sample_metadata_ingest_file AODN_AM_NRS_ALL_to_SEP2022_202211291332_GOLD_FullREPLACE_xlsx
sample_site_location_description Darwin
sample_submission_date 2021-06-08
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) 1.0
secchi_depth_meth meth_2.2
sequencer NovaSeq 6000
silicate (μmol/L) 10.4
silicate_meth meth_2.2
source_mat_id 102.100.100/141124
store_cond meth_1.4
synechococcus (cells/mL) 115940.5
synechococcus_meth meth_2.2int
temp (degC) 29.8671
temp_meth meth_2.2
ticket BPAOPS-1080
total_co2 (μmol/kg) 1987.2
total_co2_meth meth_2.2
tss (mg/L) 10.5
tss_meth meth_2.2int
url https://data.bioplatforms.com//organization/australian-microbiome?q=sample_id:102.100.100/141124
utc_date_sampled 2019-02-13
utc_time_sampled 21:30:00
viola (mg/m3) 1e-10
viola_meth meth_2.2
zea (mg/m3) 0.037
zea_meth meth_2.2