title: EMOBON_MBAL4_Wa_1
organism: marine plankton metagenome
description: EMOBON metagenome water sample from station MBAL4 collected on 2021-11-03 size fraction 3-200um
attributes.tag: ENA first public
attributes.value: 2025-04-24
attributes.tag: INSDC center name
attributes.value: European Marine Biological Resource Centre
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: EMOBON00154
attributes.tag: ammonium
attributes.value: 0.24
attributes.tag: ammonium method
attributes.value: from https://www.westernchannelobservatory.org.uk/, 5-channel Bran and Luebbe segmented flow system following MANTOURA, R.F.C, and WOODWARD, E.M.S., (1983). Estuarine, Coastal and Shelf Science, (1983), 17, 219-224.
attributes.tag: amount or size of sample collected
attributes.value: 20
attributes.tag: broad-scale environmental context
attributes.value: marine biome [ENVO:00000447];marine pelagic biome [ENVO:01000023]
attributes.tag: collection date
attributes.value: 2021-11-03
attributes.tag: conductivity
attributes.value: 40.369
attributes.tag: conductivity method
attributes.value: Valeport MIDAS 606 CTD (with a passive flow induction cell, Platinum Resistance Thermometer and a Temperature Compensated Piezo-Resistive Sensor ) with titanium housing. Full equipment specification is described by Valeport Ltd., 2006. Data were extracted and processed using Valeport DataLogX2 software (version1.0.4.1270). Manufacturer calibrations were applied to the direct measurements and parameters were derived using the in-built functions in the software Datalog X2.
attributes.tag: density
attributes.value: 1025.62
attributes.tag: density method
attributes.value: Valeport MIDAS 606 CTD (with a passive flow induction cell, Platinum Resistance Thermometer and a Temperature Compensated Piezo-Resistive Sensor ) with titanium housing. Full equipment specification is described by Valeport Ltd., 2006. Data were extracted and processed using Valeport DataLogX2 software (version1.0.4.1270). Manufacturer calibrations were applied to the direct measurements and parameters were derived using the in-built functions in the software Datalog X2.
attributes.tag: depth
attributes.value: 1
attributes.tag: dissolved oxygen
attributes.value: 237.141
attributes.tag: dissolved oxygen method
attributes.value: from https://www.westernchannelobservatory.org.uk/ collected using oxygen optode, data from 2 m
attributes.tag: dna concentration
attributes.value: 15.1
attributes.tag: environmental medium
attributes.value: seawater [ENVO:00002149]; coastal sea water [ENVO:00002150]; surface water [ENVO:00002042]
attributes.tag: geographic location (country and/or sea)
attributes.value: United Kingdom
attributes.tag: geographic location (latitude)
attributes.value: 50.25
attributes.tag: geographic location (locality)
attributes.value: Western Channel
attributes.tag: geographic location (longitude)
attributes.value: -4.217
attributes.tag: geographic location (ocean)
attributes.value: North Atlantic Ocean
attributes.tag: geographic location (region and locality)
attributes.value: English Channel
attributes.tag: library reads sequenced
attributes.value: 63945108
attributes.tag: local environmental context
attributes.value: marine pelagic feature [ENVO:01000044];marine water body [ENVO:00001999];costal water body [ENVO:02000049]
attributes.tag: mock_eu
attributes.value: DDC_AAABOSDA_2_HVWGWDSX5.UDI143;DDC_AAABOSDA_2_HVWGWDSX5.UDI217
attributes.tag: mock_pr
attributes.value: DDC_AAACOSDA_1_HVWGWDSX5.UDI164;DDC_AAACOSDA_1_HVWGWDSX5.UDI218
attributes.tag: nitrate
attributes.value: 6.995
attributes.tag: nitrate method
attributes.value: from https://www.westernchannelobservatory.org.uk/, 5-channel Bran and Luebbe segmented flow system following BREWER and RILEY, 1965, Deep Sea Research, 12: 765 - 772.
attributes.tag: nitrite
attributes.value: 0.66
attributes.tag: nitrite method
attributes.value: from https://www.westernchannelobservatory.org.uk/, 5-channel Bran and Luebbe segmented flow system following A modified GRASSHOFF, K, (1976). Verlag chemie, Weiheim: pp. 317.
attributes.tag: nucleic acid amplification
attributes.value: metag
attributes.tag: nucleic acid extraction
attributes.value: 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
attributes.tag: obs_id
attributes.value: MBAL4
attributes.tag: pcr conditions
attributes.value: DNA Polymerase:taq Q5;NoPCRs:2;PCRvolume:30;Nocycles:10
attributes.tag: pcr primers
attributes.value: metag
attributes.tag: phosphate
attributes.value: 0.39
attributes.tag: phosphate method
attributes.value: from https://www.westernchannelobservatory.org.uk/, 5-channel Bran and Luebbe segmented flow system following J-Z Zhang and J. Chi (2002), Env. Sci. and Tech., 36(5).
attributes.tag: pigments
attributes.value: 0.7537
attributes.tag: pigments method
attributes.value: this isn't pigments but fluorescence from https://www.westernchannelobservatory.org.uk/ collected using fluorometer, data from 2 m
attributes.tag: project name
attributes.value: EMOBON
attributes.tag: sample collection device
attributes.value: Niskin
attributes.tag: sample material processing
attributes.value: WaSOP 1
attributes.tag: sample name
attributes.value: EMOBON00154
attributes.tag: sample storage location
attributes.value: shipped
attributes.tag: sample storage temperature
attributes.value: -80
attributes.tag: scientific_name
attributes.value: marine plankton metagenome
attributes.tag: sea subsurface temperature
attributes.value: 13.38
attributes.tag: sea subsurface temperature method
attributes.value: Valeport MIDAS 606 CTD (with a passive flow induction cell, Platinum Resistance Thermometer and a Temperature Compensated Piezo-Resistive Sensor ) with titanium housing. Full equipment specification is described by Valeport Ltd., 2006. Data were extracted and processed using Valeport DataLogX2 software (version1.0.4.1270). Manufacturer calibrations were applied to the direct measurements and parameters were derived using the in-built functions in the software Datalog X2.
attributes.tag: sea surface temperature
attributes.value: 12.7
attributes.tag: sea surface temperature method
attributes.value: Thermometer
attributes.tag: sequence quality check
attributes.value: manual
attributes.tag: sequence_batch
attributes.value: Batch2
attributes.tag: sequence_batch_rundate
attributes.value: Batch2_230428
attributes.tag: sequencing method
attributes.value: Illumina NovaSeq 6000
attributes.tag: silicate
attributes.value: 6.415
attributes.tag: silicate method
attributes.value: from https://www.westernchannelobservatory.org.uk/, 5-channel Bran and Luebbe segmented flow system following D.S. KIRKWOOD, ICES CM 1989/ C: 29
attributes.tag: size-fraction lower threshold
attributes.value: 3
attributes.tag: size-fraction upper threshold
attributes.value: 200
attributes.tag: source material identifiers
attributes.value: EMOBON_MBAL4_Wa_211103_3um_1
attributes.tag: status
attributes.value: sample
attributes.tag: subsurface salinity
attributes.value: 34.088
attributes.tag: subsurface salinity method
attributes.value: Valeport MIDAS 606 CTD (with a passive flow induction cell, Platinum Resistance Thermometer and a Temperature Compensated Piezo-Resistive Sensor ) with titanium housing. Full equipment specification is described by Valeport Ltd., 2006. Data were extracted and processed using Valeport DataLogX2 software (version1.0.4.1270). Manufacturer calibrations were applied to the direct measurements and parameters were derived using the in-built functions in the software Datalog X2.
attributes.tag: target gene
attributes.value: metag
attributes.tag: target subfragment
attributes.value: metag
attributes.tag: tidal stage
attributes.value: low
attributes.tag: tidal stage information
attributes.value: ebb_tide
attributes.tag: total depth of water column
attributes.value: 51
attributes.tag: turbidity
attributes.value: 6
attributes.tag: turbidity method
attributes.value: Secchi disc