EMOBON_AAOT_Wa_26
marine plankton metagenome
ENA first public
2024-11-11
INSDC center name
European Marine Biological Resource Centre
INSDC status
public
Submitter Id
EMOBON00054
ammonium
0.54
amount or size of sample collected
5
broad-scale environmental context
marine biome [ENVO:00000447];marine pelagic biome [ENVO:01000023];mediterranean sea biome[ENVO_01000047]
chlorophyll
0.08
chlorophyll method
filtration on 0.2 um FG filters. extraction in acetone overnight. fluorimetric measurement
collection date
2021-08-09
depth
1
dna concentration
5.67
environmental medium
seawater [ENVO:00002149]; coastal sea water [ENVO:00002150]; surface water [ENVO:00002042]
geographic location (country and/or sea)
Italy
geographic location (latitude)
45.314167
geographic location (locality)
Gulf of Venice
geographic location (longitude)
12.508333
geographic location (ocean)
Mediterranean Sea - Eastern Basin
geographic location (region and locality)
Adriatic Sea
library reads sequenced
51762061
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
0.08
nitrite
0.01
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
AAOT
pcr conditions
DNA Polymerase:taq Q5;NoPCRs:2;PCRvolume:30;Nocycles:10
pcr primers
metag
phosphate
0.08
project name
EMOBON
relevant standard operating procedures
Prod_ILL_BqADN_NEBUII_151_v4; Bq NEB Next Ultra II
salinity
35.57
salinity method
Seabird SBE 911plus CTD system
sample collection device
Niskin
sample material processing
WaSOP 1
sample name
EMOBON00054
sample storage location
DeepFreezer No2, second shelf, drawer 2
sample storage temperature
-78
scientific_name
marine plankton metagenome
sea subsurface temperature
19.02
sea subsurface temperature method
Seabird SBE 911plus CTD system
sea surface temperature
26.16
sea surface temperature method
Seabird SBE 911plus CTD system
sequence quality check
manual
sequence_batch
Batch1
sequence_batch_rundate
Batch1_220712
sequencing method
Illumina NovaSeq 6000
silicate
0.08
size-fraction lower threshold
0.2
size-fraction upper threshold
3
source material identifiers
EMOBON_AAOT_Wa_210809_0.2um_1
status
sample
subsurface salinity
37.73
subsurface salinity method
Seabird SBE 911plus CTD system
target gene
metag
target subfragment
metag
tidal stage
high
tidal stage information
flood_tide
total depth of water column
17
turbidity
1.25