EMOBON_OSD74_Wa_4
marine plankton metagenome
ENA first public
2024-11-11
INSDC center name
European Marine Biological Resource Centre
INSDC status
public
Submitter Id
EMOBON00047
ammonium
4.57
ammonium method
Spectrophotometry
amount or size of sample collected
5.4
broad-scale environmental context
marine biome [ENVO:00000447];marine pelagic biome [ENVO:01000023];estuarine biome [ENVO:01000020]
chlorophyll
2.62
chlorophyll method
Spectrophotometry
collection date
2021-08-31
conductivity
9642.9
conductivity method
in situ multiparametric probe
depth
1
dissolved oxygen
7.84
dissolved oxygen method
in situ multiparametric probe
dna concentration
50.9
environmental medium
seawater [ENVO:00002149]; coastal sea water [ENVO:00002150]; surface water [ENVO:00002042]
geographic location (country and/or sea)
Portugal
geographic location (latitude)
41.146528
geographic location (locality)
Porto Valley
geographic location (longitude)
-8.666639
geographic location (ocean)
Atlantic Ocean
geographic location (region and locality)
North Atlantic Ocean
library reads sequenced
52133600
local environmental context
marine pelagic feature [ENVO:01000044];marine water body [ENVO:00001999];costal water body [ENVO:02000049]
mock_pr
DDC_AAAAOSDA_1_HMNJKDSX3.UDI201
nitrate
32.25
nitrate method
Spectrophotometry
nitrite
1.15
nitrite method
Spectrophotometry
nucleic acid amplification
metag
nucleic acid extraction
https://www.protocols.io/view/cryogrinding-protocol-mecanic-lysis-of-planktonic-n92ldyq88l5b/v1; https://www.protocols.io/view/rna-dna-extraction-from-plankton-natural-samples-u-eq2lynz2qvx9/v1; https://www.fishersci.com/shop/products/nucleospin-rna-ii-740955-250/NC0707522; https://www.mn-net.com/lysis-buffer-ra1-740961
obs_id
OSD74
pH
7.32
pcr conditions
DNA Polymerase:taq Q5;NoPCRs:2;PCRvolume:30;Nocycles:10
pcr primers
metag
ph method
in situ multiparametric probe
phaeopigments
1.83
phaeopigments method
Spectrophotometry
phosphate
0.52
phosphate method
Spectrophotometry
pressure
0.127
pressure method
in situ multiparametric probe
project name
EMOBON
relevant standard operating procedures
Prod_ILL_BqADN_NEBUII_151_v4; Bq NEB Next Ultra II
salinity
5.42
salinity method
in situ multiparametric probe
sample collection device
Bucket
sample material processing
WaSOP1
sample name
EMOBON00047
sample storage location
CIIMAR - EcoBioTec New -80ºC Freezer
sample storage temperature
-80
scientific_name
marine plankton metagenome
sea subsurface temperature
22.745
sea subsurface temperature method
in situ multiparametric probe
sea surface temperature
22.724
sea surface temperature method
in situ multiparametric probe
sequence quality check
manual
sequence_batch
Batch1
sequence_batch_rundate
Batch1_220712
sequencing method
Illumina NovaSeq 6000
silicate
45.36
silicate method
Spectrophotometry
size-fraction lower threshold
0.2
size-fraction upper threshold
3
source material identifiers
EMOBON_OSD74_Wa_210831_0.2um_2
status
sample
subsurface salinity
5.31
subsurface salinity method
in situ multiparametric probe
target gene
metag
target subfragment
metag
tidal stage
high
tidal stage information
high_tide
total depth of water column
1
turbidity
0.67