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Wittenborn, Anna; Bauersachs, Thorsten; Hassenrück, Christiane; Käding, Katja; Jürgens, Klaus (2023): Glycerol dialkyl glycerol tetraethers (GDGT) lipids and CARD-FISH data from suspended particulate matter from the central Baltic Sea [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.958465

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Published: 2023-05-17DOI registered: 2023-06-15

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Abstract:
During expedition EMB201 in the Baltic Sea we investigated the local producers of glycerol dialkyl glycerol tetraethers (GDGT) and their thriving depth by a combined 16S rRNA gene amplicon sequencing/ CARD-FISH and lipidomic approach. Water samples were taken in December 2018 by a pump-CTD, a giant water sampler and with Niskin bottles at the surface, suboxic and sulfidic zones of the Landsort Deep, Fårö Basin and East Gotland Basin. This data set contains the CARD-FISH and lipidomics data, while the 16S rRNA gene sequencing data is available on ENA. Cell abundance was analysed in an aliquot of 40 ml filtered (pore size 0.22 micro m) sea water fixed with particle-free formaldehyde. Archaeal cells on the filters were specifically hybridized via catalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH) using the Cren537 probe. Cells on the hybridized filter were counter-stained with 40,6-diamidin-2-phenylindol (DAPI). For lipid analysis, 150–600 L sea water were filtered with a flow rate of 1.5 L min-1 on pre-ashed, 142-mm-diameter, 0.7µm pore size glass fibre GF/F filters, and frozen at –20 °C. The filters were lyophilized before different extraction methods were used to obtain intact and core GDGTs by ultra-sonification in different solvent mixtures. The combined supernatants were phase separated before analysis by high performance liquid chromatography coupled to tandem mass spectrometry (HPLC-MS2) for intact polar lipids and by high performance liquid chromatography coupled to atmospheric pressure chemical ionization mass spectrometry (HPLC APCI-MS; ThermoScientific) for core GDGTs.
Keyword(s):
Archaea; Baltic Sea; CARD-FISH; core lipids; glycerol dialkyl glycerol tetraethers; Intact polar lipids
Supplement to:
Wittenborn, Anna; Bauersachs, Thorsten; Hassenrück, Christiane; Käding, Katja; Jürgens, Klaus (2023): Nitrosopumilus as main source of isoprenoid glycerol dialkyl glycerol tetraether lipids in the central Baltic Sea. Frontiers in Microbiology, 14, https://doi.org/10.3389/fmicb.2023.1216130
Related to:
Wittenborn, Anna; Wäge-Recchioni, Janine; Hassenrück, Christiane; Jürgens, Klaus (2023): 16S rRNA gene amplicon sequences from suspended particulate matter from the central Baltic Sea [dataset]. European Nucleotide Archive (ENA), insdc:PRJEB61728
Funding:
Deutsche Forschungsgemeinschaft, Bonn (DFG), grant/award no. 328543621: A comprehensive study for the application of proxies based on glycerol dialkyl glycerol tetraethers in the Baltic Sea (TETRABAL)
Leibniz Association (Leibniz Association), grant/award no. SAW-2017-IOW-2 649: BaltRap: The Baltic Sea and its southern Lowlands: proxy – environment interactions in time of rapid change
Coverage:
Median Latitude: 58.022807 * Median Longitude: 19.448808 * South-bound Latitude: 57.319070 * West-bound Longitude: 18.266660 * North-bound Latitude: 58.639440 * East-bound Longitude: 20.080790
Date/Time Start: 2018-12-02T22:01:00 * Date/Time End: 2018-12-10T07:43:00
Minimum DEPTH, water: -425 m * Maximum DEPTH, water: -4 m
Event(s):
EMB201_5-3 (Stat. TF 271 Stat. 4)  * Latitude Start: 57.319704 * Longitude Start: 20.048070 * Latitude End: 57.320194 * Longitude End: 20.049254 * Date/Time Start: 2018-12-02T22:01:00 * Date/Time End: 2018-12-03T06:48:00 * Elevation Start: -245.5 m * Elevation End: -245.4 m * Location: Baltic Sea * Campaign: EMB201 (BaltRap) * Basis: Elisabeth Mann Borgese * Method/Device: Go-Flo bottles (GOFLO)
EMB201_7-0  * Latitude: 57.319070 * Longitude: 20.050460 * Date/Time: 2018-12-05T20:24:00 * Elevation: -4.0 m * Location: Eastern Gotland Basin * Campaign: EMB201 (BaltRap) * Basis: Elisabeth Mann Borgese * Method/Device: Ships non-toxic pump (GPUMP)
EMB201_7-1 (Station 04 (TF 271))  * Latitude Start: 57.319071 * Longitude Start: 20.050457 * Latitude End: 57.319653 * Longitude End: 20.048042 * Date/Time Start: 2018-12-05T20:23:00 * Date/Time End: 2018-12-05T22:29:00 * Elevation Start: -246.0 m * Elevation End: -245.8 m * Location: Baltic Sea * Campaign: EMB201 (BaltRap) * Basis: Elisabeth Mann Borgese * Method/Device: Go-Flo bottles (GOFLO)
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
Event labelEvent
Other eventOther event
Station labelStation
DATE/TIMEDate/TimeGeocode
LATITUDELatitudeGeocode
LONGITUDELongitudeGeocode
LocationLocation
SiteSite
DEPTH, waterDepth watermGeocode
10 Sample code/labelSample labelSample names used for sequence data submission
11 Temperature, waterTemp°CConductivity-Temperature-Depth- profiler (CTD), Sea-Bird Scientific, SBE 911plus
12 Oxygen, dissolvedDOml/lConductivity-Temperature-Depth- profiler (CTD), Sea-Bird Scientific, SBE 911plus
13 Cells, 4',6-Diamidin-2-phenylindol stainedCells DAPI#/mlKäding, KatjaCatalyzed reporter deposition fluorescence in situ hybridisation (CARD-FISH)
14 Crenarchaeota, targeted with Cren537 oligonucleotide FISH-probeCren537#/mlKäding, KatjaCatalyzed reporter deposition fluorescence in situ hybridisation (CARD-FISH)
15 Monohexose-archaeolMH ARpeak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)
16 Dihexose-archaeolDH ARpeak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)
17 Monohexose-macroarchaeolMH MacroARpeak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)
18 Monohexose acyclic glycerol dialkyl glycerol tetraetherMH-GDGT-0peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Monohexose
19 Monohexose monocyclic glycerol dialkyl glycerol tetraetherMH-GDGT-1peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Monohexose
20 Monohexose dicyclic glycerol dialkyl glycerol tetraetherMH-GDGT-2peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Monohexose
21 Monohexose tricyclic glycerol dialkyl glycerol tetraetherMH-GDGT-3peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Monohexose
22 Monohexose crenarchaeolMH-GDGT-crenpeak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Monohexose
23 Monohexose crenarchaeol regio-isomerMH-GDGT-cren'peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Monohexose
24 Dihexose acyclic glycerol dialkyl glycerol tetraetherDH-GDGT-0peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Dihexose
25 Dihexose monocyclic glycerol dialkyl glycerol tetraetherDH-GDGT-1peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Dihexose
26 Dihexose dicyclic glycerol dialkyl glycerol tetraetherDH-GDGT-2peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Dihexose
27 Dihexose tricyclic glycerol dialkyl glycerol tetraetherDH-GDGT-3peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Dihexose
28 Dihexose crenarchaeolDH-GDGT-crenpeak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Dihexose
29 Phosphohexose acyclic glycerol dialkyl glycerol tetraetherPH-GDGT-0peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Phosphohexose
30 Phosphohexose monocyclic glycerol dialkyl glycerol tetraetherPH-GDGT-1peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Phosphohexose
31 Phosphohexose dicyclic glycerol dialkyl glycerol tetraetherPH-GDGT-2peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Phosphohexose
32 Phosphohexose tricyclic glycerol dialkyl glycerol tetraetherPH-GDGT-3peak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Phosphohexose
33 Phosphohexose crenarchaeolPH-GDGT-crenpeak area/lBauersachs, ThorstenHigh performance liquid chromatography (HPLC), Waters Corporation, Alliance 2690; coupled with Triple quadrupole tandem mass spectrometer (LC-MS/MS), Micromass, Quattro LC (LC-MS/MS)with the headgroup Phosphohexose
34 Core acyclic glycerol dialkyl glycerol tetraetherC-GDGT-0ng/lWittenborn, AnnaUltra high performance liquid chromatography (UHPLC), Dionex Corporation, UltiMate 3000 RS; coupled with Single quadrupole mass spectrometer, Thermo Scientific, MSQ Plus
35 Core monocyclic glycerol dialkyl glycerol tetraetherC-GDGT-1ng/lWittenborn, AnnaUltra high performance liquid chromatography (UHPLC), Dionex Corporation, UltiMate 3000 RS; coupled with Single quadrupole mass spectrometer, Thermo Scientific, MSQ Plus
36 Core dicyclic glycerol dialkyl glycerol tetraetherC-GDGT-2ng/lWittenborn, AnnaUltra high performance liquid chromatography (UHPLC), Dionex Corporation, UltiMate 3000 RS; coupled with Single quadrupole mass spectrometer, Thermo Scientific, MSQ Plus
37 Core tricyclic glycerol dialkyl glycerol tetraetherC-GDGT-3ng/lWittenborn, AnnaUltra high performance liquid chromatography (UHPLC), Dionex Corporation, UltiMate 3000 RS; coupled with Single quadrupole mass spectrometer, Thermo Scientific, MSQ Plus
38 Core crenarchaeolC-GDGT-crenng/lWittenborn, AnnaUltra high performance liquid chromatography (UHPLC), Dionex Corporation, UltiMate 3000 RS; coupled with Single quadrupole mass spectrometer, Thermo Scientific, MSQ Plus
39 Core crenarchaeol regio-isomerC-GDGT-cren'ng/lWittenborn, AnnaUltra high performance liquid chromatography (UHPLC), Dionex Corporation, UltiMate 3000 RS; coupled with Single quadrupole mass spectrometer, Thermo Scientific, MSQ Plus
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
371 data points

Data

Download dataset as tab-delimited text — use the following character encoding:


Event

Other event

Station

Date/Time

Latitude

Longitude

Location

Site

Depth water [m]
10 
Sample label
11 
Temp [°C]
12 
DO [ml/l]
13 
Cells DAPI [#/ml]
14 
Cren537 [#/ml]
15 
MH AR [peak area/l]
16 
DH AR [peak area/l]
17 
MH MacroAR [peak area/l]
18 
MH-GDGT-0 [peak area/l]
19 
MH-GDGT-1 [peak area/l]
20 
MH-GDGT-2 [peak area/l]
21 
MH-GDGT-3 [peak area/l]
22 
MH-GDGT-cren [peak area/l]
23 
MH-GDGT-cren' [peak area/l]
24 
DH-GDGT-0 [peak area/l]
25 
DH-GDGT-1 [peak area/l]
26 
DH-GDGT-2 [peak area/l]
27 
DH-GDGT-3 [peak area/l]
28 
DH-GDGT-cren [peak area/l]
29 
PH-GDGT-0 [peak area/l]
30 
PH-GDGT-1 [peak area/l]
31 
PH-GDGT-2 [peak area/l]
32 
PH-GDGT-3 [peak area/l]
33 
PH-GDGT-cren [peak area/l]
34 
C-GDGT-0 [ng/l]
35 
C-GDGT-1 [ng/l]
36 
C-GDGT-2 [ng/l]
37 
C-GDGT-3 [ng/l]
38 
C-GDGT-cren [ng/l]
39 
C-GDGT-cren' [ng/l]
EMB201_5-3 TF 2712018-12-02T22:01:0057.3197020.04807Baltic SeaEastern Gotland Basin-220EMB201_4-3_CTD_2206.90.0011054143.391304348061744.5230769230841132.54511278195505280.8176691729332667.596616541354547239.27857142860083268.859398496240039160.542857142860036567.304511278200000778729.01954887230028666.31616541353346717.57556390978049311.48721804510633132.904511278200024315.9868421052606536.7609022556390011713.09060150376001371.887593984962500.00000000000000.000000000000006745.12443609022601.436685338463930700.1669801065976750700.07779716558853264000.01524405650769389800.820024639090962600.0129355621644818670
EMB201_7-1 TF 2712018-12-05T20:23:0057.3190720.05046Baltic SeaEastern Gotland Basin-80EMB201_6-1_CTD_805.40.038859091.008695652466537.4769230769300.00000000000000.0000000000000.000000000000319557.00537313430021603.81492537312807393.92716417910401238.654328358208700233529.0268656716000.00000000000033401.45194029851021486.60537313432417331.528358208958016208.9086567164185130.7343283582080013936.30925373134201295.211940298507200.00000000000000.000000000000004951.32179104477501.158216065286925300.0715131143386411900.03110523581818116400.01067477181829978700.665358581160938000.0100377222054727230
EMB201_7-1TF 2712018-12-05T20:23:0057.3190720.05046Baltic SeaEastern Gotland Basin-74EMB201_6-1_CTD_744.81.274887775.182608695889656.4307692307600.00000000000000.0000000000000.000000000000355951.12675807160034955.561609907120016513.936134453783018088.726758071650000381443.83122512160014844.17726669615391969.01477222466084240.33967271118046045.756744803184021160.6927908005279638.6547545333920017080.68429898275301352.712605042016500.00000000000000.000000000000005331.96992481203000.993776501085193200.0751664215615596700.03300401420819476000.00750805066489672500.613600904233383200.0081760173446329800
EMB201_7-0 TF 2712018-12-05T20:24:0057.3190720.05046Baltic SeaEastern Gotland Basin-4EMB201_6_FSL_46.37.650490499.373913043619453.7538461538460.00000000000000.0000000000000.00000000000017672.469978401725733.5291576673866595.0607837087318130.18204257945078016706.5947547053370.0000000000004807.4828756556604442.1622955877814137.29416846652204228.641530391855927.986917618019104810.95069423017500.000000000000000.0000000000000459.869176180191301955.93187287874120.164798225345240000.0056233882437816140.00241644478057233800.00137640011087727270.114342101088035400.0006765847668341988
EMB201_9-1 2018-12-06T19:36:0057.9985019.88193Baltic SeaFårö Basin-77EMB201_8-1_CTD_775.40.037870564.6782608698103612.3846153846100.986095794474858400.0545021282152922000.02195097524054610000.00769412462687376500.517603985375721200.0059372785615668220
EMB201_10-3 EMB201_10-4, EMB201_10-5, EMB201_10-6, EMB201_10-7, EMB201_10-82018-12-07T18:00:0058.1462820.07827Baltic SeaFårö Basin-160EMB201_9-4_CTD_1606.70.0071044103.930434782878801.7999999999902500.82359882005900.0000000000000.000000000000186397.51976401184022202.82005899705009820.10619469026601765.699115044247700209941.3994100295200.00000000000030443.93156342183032014.99941002950419917.633038348080017082.0129793510353360.1486725663713014060.76696165191801449.84542772861350766.4519174041297245.465486725663774898.40707964601702.130359219119179000.0980121403230470300.03817470249564878000.01476443554104736601.113613592108569700.0104566806833541660
EMB201_10-9 EMB201_10-10, EMB201_10-11, EMB201_10-12, EMB201_10-13, EMB201_10-142018-12-07T20:15:0058.1480120.08079Baltic SeaFårö Basin-72EMB201_9-4_CTD_725.30.1111117248.5739130436139982.4461538461303300.33064857990600.0000000000000.000000000000296874.10767274270018362.13649851632008049.5718524798650386.468842729970330224370.8096651123500.000000000000156991.90334887663088835.65917761764063386.324713861810047051.91182704536011890.0635862653670052498.50784230605503888.503603221703500.00000000000000.0000000000000014056.98177193726001.052107427191013600.0962564899824655800.04046508408984299000.00913220989858281300.617621895805934400.0082753910735467570
EMB201_9-0 2018-12-07T15:00:0058.1462820.07827Baltic SeaFårö Basin-4EMB201_9_FSL_46.27.751668341.252173913223823.8000000000000.00000000000000.0000000000000.0000000000009936.701587301590684.5682539682540465.793650793650826.48888888888888710658.2015873015880.0000000000004508.9619047619053319.9809523809532964.94920634920663439.147619047619443.877777777777742235.6507936507937356.704761904761940.00000000000000.00000000000000692.86031746031760.160215441488102300.0061261458585347150.00249118671896338430.00119337458419419250.114542116840921280.0007115904373192111
EMB201_12-4 2018-12-10T07:43:0058.6394418.26666Baltic SeaLandsort Deep-425EMB201_11-4_GWS_4256.20.003434565.234782608828052.8769230769201773.12834937083680.0000000000000.000000000000397404.66466321255035635.882694300526014825.54238341969402378.975129533679000382695.3780310881000.00000000000057686.96145077720648374.39564766839632352.734922279793031088.8178238342007881.8020725388615024657.21699481865702498.965181347150500.00000000000000.000000000000004934.96020725388701.273861368821294700.1039334524406980000.03936181713714387000.01143988267505563100.660160703544825400.0088262480741078350
EMB201_12-42018-12-10T07:43:0058.6394418.26666Baltic SeaLandsort Deep-99EMB201_11-5_GWS_995.50.035658301.7913043479111929.5692307692200.00000000000000.0000000000000.000000000000522242.45901639346027175.524590163932010773.89344262295206245.901639344262000394768.0245901639000.000000000000123369.31967213117071110.13934426230050933.073770491800048453.40983606558012475.3278688524590065130.63114754098006561.901639344263000.00000000000000.0000000000000012598.39344262295201.316361929543213800.0709012746039570200.02808941859931008600.01223340841530065800.714296539844572000.0082975188542867440
EMB201_12-5 2018-12-10T07:43:0058.6394418.26666Baltic SeaLandsort Deep-96EMB201_11-6_GWS_965.50.037943709.3217391307164370.1230769230800.00000000000000.0000000000000.000000000000129606.8314744079306355.76012223071102672.2258212375855247.64369747899156094628.2166539342900.00000000000068435.40320855613038028.83789152024025444.822001527886019422.9240641711204059.8126814362104014955.79434682964001168.553399541635000.00000000000000.000000000000004850.08831168831201.214816485345720400.0626804943803742400.02382012697946661600.00984410040982239600.637164644708738000.0073468581950145220
EMB201_12-0 2018-12-10T07:30:0058.6393818.26701Baltic SeaLandsort Deep-4EMB201_11_FSL_46.17.727760130.608695652543841.4307692307700.00000000000000.0000000000000.00000000000042298.5554211261102026.5777570963240966.3087947882738776.08506281991640041091.6982782689700.00000000000026835.94397394137017350.19916240111716144.490646812472017414.0800372266203501.1510469986047020822.29669613774200.000000000000000.00000000000000.000000000000006076.42252210330500.238187677551156860.0084378947620644980.00395501470162785600.00202910258612635850.175956834569128400.0010858970422008753