EMOBON_RFormosa_Wa_6
marine plankton metagenome
ENA first public
2024-11-11
INSDC center name
European Marine Biological Resource Centre
INSDC status
public
Submitter Id
EMOBON00044
amount or size of sample collected
5
broad-scale environmental context
marine biome [ENVO:00000447]
chlorophyll
21.69
chlorophyll method
Fluorometer 10-AU
collection date
2021-08-05
depth
0.2
dissolved oxygen
271.875
dissolved oxygen method
YSI ProSolo Digital
dna concentration
49.3
environmental medium
lagoon [ENVO_00000038];marine water body [ENVO:00001999]; surface water [ENVO:00002042]
geographic location (country and/or sea)
Portugal
geographic location (latitude)
37.005639
geographic location (locality)
Ria Formosa
geographic location (longitude)
-7.96925
geographic location (ocean)
Atlantic Ocean
geographic location (region and locality)
North Atlantic Ocean
library reads sequenced
42523772
local environmental context
lagoon [ENVO_00000038];marine water body [ENVO:00001999]
mock_pr
DDC_AAAAOSDA_1_HMNJKDSX3.UDI201
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
RFormosa
pH
8.242
pcr conditions
DNA Polymerase:taq Q5;NoPCRs:2;PCRvolume:30;Nocycles:10
pcr primers
metag
ph method
Thermo scientific orion star A221
pressure
0.998766
pressure method
YSI ProSolo Digital
project name
EMOBON
relevant standard operating procedures
Prod_ILL_BqADN_NEBUII_151_v4; Bq NEB Next Ultra II
salinity
38.03
salinity method
YSI ProSolo Digital
sample collection device
bucket
sample material processing
WaSOP 1
sample name
EMOBON00044
sample storage location
Ed7, room 1.10, freezer #300387-118
sample storage temperature
-80
scientific_name
marine plankton metagenome
sea subsurface temperature
26.3
sea subsurface temperature method
Thermo scientific orion star A221
sea surface temperature
26.3
sea surface temperature method
Thermo scientific orion star A221
sequence quality check
manual
sequence_batch
Batch1
sequence_batch_rundate
Batch1_220712
sequencing method
Illumina NovaSeq 6000
size-fraction lower threshold
0.2
size-fraction upper threshold
3
source material identifiers
EMOBON_RFormosa_Wa_210805_0.2um_2
status
sample
subsurface salinity
38.03
subsurface salinity method
YSI ProSolo Digital
target gene
metag
target subfragment
metag
tidal stage
low
tidal stage information
low_tide
total depth of water column
1