EMOBON_HCMR-1_Wa_5
marine plankton metagenome
ENA first public
2024-11-11
INSDC center name
European Marine Biological Resource Centre
INSDC status
public
Submitter Id
EMOBON00071
amount or size of sample collected
30
broad-scale environmental context
marine biome [ENVO:00000447];marine pelagic biome [ENVO:01000023];mediterranean sea biome[ENVO_01000047]
chlorophyll
0.236
chlorophyll method
TD-700 Laboratory Fluorometer
collection date
2021-06-28
depth
1
dna concentration
4.83
environmental medium
seawater [ENVO:00002149]; coastal sea water [ENVO:00002150]
geographic location (country and/or sea)
Greece
geographic location (latitude)
35.346621
geographic location (locality)
Crete Sea
geographic location (longitude)
25.278761
geographic location (ocean)
Mediterranean Sea - Eastern Basin
geographic location (region and locality)
Aegean Sea
library reads sequenced
49923687
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
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
HCMR-1
pcr conditions
DNA Polymerase:taq Q5;NoPCRs:2;PCRvolume:30;Nocycles:10
pcr primers
metag
project name
EMOBON
relevant standard operating procedures
Prod_ILL_BqADN_NEBUII_151_v4; Bq NEB Next Ultra II
salinity
39.4
salinity method
HQ1140 Portable Conductivity/TDS Meter with Conductivity Electrode
sample collection device
Jerrycan
sample material processing
WaSOP 1
sample name
EMOBON00071
sample storage location
Basement, New chest freezer -80C, Left side, Carton box
sample storage temperature
-80
scientific_name
marine plankton metagenome
sea subsurface temperature
27.7
sea subsurface temperature method
HQ1140 Portable Conductivity/TDS Meter with Conductivity Electrode
sea surface temperature
27.7
sea surface temperature method
HQ1140 Portable Conductivity/TDS Meter with Conductivity Electrode
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_HCMR-1_Wa_210628_0.2um_1
status
sample
subsurface salinity
39.4
subsurface salinity method
HQ1140 Portable Conductivity/TDS Meter with Conductivity Electrode
target gene
metag
target subfragment
metag
tidal stage information
no_tide
total depth of water column
21