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Data Publisher for Earth & Environmental Science

Morard, Raphael; Lejzerowicz, Franck; Darling, Kate F; Lecroq-Bennet, Beatrice; Pedersen, Mikkel Winther; Orlando, Ludovic; Pawlowski, Jan; Mulitza, Stefan; De Vargas, Colomban; Kucera, Michal (2016): (Supplement 1) Detailed information on environmental samples and sequence data. PANGAEA, https://doi.org/10.1594/PANGAEA.868770, Supplement to: Morard, R et al. (2017): Planktonic foraminifera-derived environmental DNA extracted from abyssal sediments preserves patterns of plankton macroecology. Biogeosciences, 14, 2741-2754, https://doi.org/10.5194/bg-14-2741-2017

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Abstract:
Deep-sea sediments constitute a unique archive of ocean change, fueled by a permanent rain of mineral and organic remains from the surface ocean. Until now, paleo-ecological analyses of this archive have been mostly based on information from taxa leaving fossils. In theory, environmental DNA (eDNA) in the sediment has the potential to provide information on non-fossilized taxa, allowing more comprehensive interpretations of the fossil record. Yet, the process controlling the transport and deposition of eDNA onto the sediment and the extent to which it preserves the features of past oceanic biota remains unknown. Planktonic foraminifera are the ideal taxa to allow an assessment of the eDNA signal modification during deposition because their fossils are well preserved in the sediment and their morphological taxonomy is documented by DNA barcodes. Specifically, we re-analyze foraminiferal-specific metabarcodes from 31 deep-sea sediment samples, which were shown to contain a small fraction of sequences from planktonic foraminifera. We confirm that the largest portion of the metabarcode originates from benthic bottom-dwelling foraminifera, representing the in situ community, but a small portion (<10 %) of the metabarcodes can be unambiguously assigned to planktonic taxa. These organisms live exclusively in the surface ocean and the recovered barcodes thus represent an allochthonous component deposited with the rain of organic remains from the surface ocean. We take advantage of the planktonic foraminifera portion of the metabarcodes to establish to what extent the structure of the surface ocean biota is preserved in sedimentary eDNA. We show that planktonic foraminifera DNA is preserved in a range of marine sediment types, the composition of the recovered eDNA metabarcode is replicable and that both the similarity structure and the diversity pattern are preserved. Our results suggest that sedimentary eDNA could preserve the ecological structure of the entire pelagic community, including non-fossilized taxa, thus opening new avenues for paleoceanographic and paleoecological studies.
Coverage:
Median Latitude: 34.312035 * Median Longitude: 23.499871 * South-bound Latitude: -62.010800 * West-bound Longitude: -65.010000 * North-bound Latitude: 87.069600 * East-bound Longitude: 136.310000
Date/Time Start: 2007-03-22T00:00:00 * Date/Time End: 2008-09-11T19:44:00
Minimum Elevation: -5338.0 m * Maximum Elevation: -222.0 m
Event(s):
Galathea_3_Win3 (Win 3)  * Latitude: 17.582000 * Longitude: -65.010000 * Date/Time: 2007-03-22T00:00:00 * Elevation: -4352.0 m * Campaign: Galathea 3 * Basis: HDMS Vaedderen
Galathea_3_Win4 (Win 4)  * Latitude: 18.135600 * Longitude: -64.323700 * Date/Time: 2007-03-22T00:00:00 * Elevation: -1745.0 m * Campaign: Galathea 3 * Basis: HDMS Vaedderen
Galathea_3_Win6 (Win 6)  * Latitude: 18.052600 * Longitude: -64.563100 * Date/Time: 2007-03-23T00:00:00 * Elevation: -2875.0 m * Campaign: Galathea 3 * Basis: HDMS Vaedderen
Comment:
Swiss National Science Foundation grants 31003A-140766 and 313003A-159709.
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
Event labelEventMorard, Raphael
Latitude of eventLatitudeMorard, Raphael
Longitude of eventLongitudeMorard, Raphael
Elevation of eventElevationmMorard, Raphael
Date/Time of eventDate/TimeMorard, Raphael
NameNameMorard, RaphaelLibrary name
Cruise/expeditionExpeditionMorard, Raphael
Station labelStationMorard, Raphael
Sediment typeSedimentMorard, Raphael
10 Reference/sourceReferenceMorard, Raphael
11 ReadsReads#Morard, RaphaelTotal raw reads
12 ReadsReads#Morard, RaphaelFiltered reads
13 Number of sequencesSequence no#Morard, RaphaelDereplicated sequences
14 ReadsReads#Morard, RaphaelReads - no singletons
15 Number of sequencesSequence no#Morard, RaphaelDereplicated sequences - no singletons
16 ReadsReads#Morard, RaphaelTotal number of planktonic foraminifera reads
17 Number of sequencesSequence no#Morard, RaphaelNumber of planktonic foraminifera dereplicated sequences
18 ReadsReads#Morard, RaphaelNumber of retained reads
19 Number of e-ribotypeNo e-ribotype#Morard, RaphaelNumber of unique e-ribotype per sample
20 Number of genotypeNo genotype#Morard, RaphaelNumber of unique genotype per sample
21 Number of morphospeciesNo morphospecies#Morard, RaphaelNumber of unique morphospecies per sample
Size:
496 data points

Data

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


Event

Latitude

Longitude

Elevation [m]

Date/Time

Name
(Library name)

Expedition

Station

Sediment
10 
Reference
11 
Reads [#]
(Total raw reads)
12 
Reads [#]
(Filtered reads)
13 
Sequence no [#]
(Dereplicated sequences)
14 
Reads [#]
(Reads - no singletons)
15 
Sequence no [#]
(Dereplicated sequences - no s...)
16 
Reads [#]
(Total number of planktonic fo...)
17 
Sequence no [#]
(Number of planktonic foramini...)
18 
Reads [#]
(Number of retained reads)
19 
No e-ribotype [#]
(Number of unique e-ribotype p...)
20 
No genotype [#]
(Number of unique genotype per...)
21 
No morphospecies [#]
(Number of unique morphospecie...)
PS71/033-12 -62.0108-3.0010-53382007-12-30SFA07ANTXXIV-2033-12deep-sea mudepic.awi.de2544701106882414874106115572051287287126051411
PS71/085-5 -52.02000.0034-29812008-01-26SFA08ANTXXIV-2085-5foraminifera/diatom ooze with greenish fluff layerepic.awi.de23134521167629207261155508860590611900933
PS71/085-7 -52.02550.0027-29962008-01-27SFA09ANTXXIV-2085-7foraminifera/diatom ooze with greenish fluff layerepic.awi.de30328531318054210691305780879526362726322554
PS71/085-5-52.02000.0034-29812008-01-26SFA22ANTXXIV-2085-5foraminifera/diatom ooze with greenish fluff layerepic.awi.de1005150426829168854167916847824207861044
PS71/085-5-52.02000.0034-29812008-01-26SFA23ANTXXIV-2085-5foraminifera/diatom ooze with greenish fluff layerepic.awi.de26108221325867176891316640846296711958722
PS71/085-5-52.02000.0034-29812008-01-26SFA24ANTXXIV-2085-5foraminifera/diatom ooze with greenish fluff layerepic.awi.de2016400102284614983101460467418724872411
PS70/265-1 83.702860.6543-35382007-08-13SFA02ARK22-2265-1no informationepic.awi.de487525231694621078131634204739000000
PS70/265-2 83.685460.6897-35192007-08-13SFA03ARK22-2265-2no informationepic.awi.de423715034181813964733923231378953145052683651
PS70/239-6 80.989434.0011-2222007-08-01SFA04ARK22-2239-6no informationepic.awi.de203221019884152929919685789462000000
PS70/309-8 87.0696104.6593-44432007-08-28SFA05ARK22-2309-8no informationepic.awi.de3936158328678034998326357611794000000
PS70/299-2 84.037089.1011-36962007-08-23SFA19ARK22-2299-2no informationno information162840485870310652853354530339894639894664
PS70/299-284.037089.1011-36962007-08-23SFA20ARK22-2299-2no informationno information189459110299089623102554552601159977115666653
PS70/299-284.037089.1011-36962007-08-23SFA21ARK22-2299-2no informationno information1807474100401811913997799569463567062733832
Galathea_3_Win3 17.5820-65.0100-43522007-03-22SFA16Galathea 3Win 3no informationno information26919975285658885522970329068668644
Galathea_3_Win4 18.1356-64.3237-17452007-03-22SFA17Galathea 3Win 4no informationno information25645081774234107811767754430148648644
Galathea_3_Win6 18.0526-64.5631-28752007-03-23SFA18Galathea 3Win 6no informationno information2839703668064158596582196014212112121175
Galathea_3_Win618.0526-64.5631-28752007-03-23SFA31Galathea 3Win 6no informationno information2521949410668105514041604043130111301155
Galathea_3_Win618.0526-64.5631-28752007-03-23SFA32Galathea 3Win 6no informationno information21773678708767164867283357164662522
Galathea_3_Win618.0526-64.5631-28752007-03-23SFA33Galathea 3Win 6no informationno information1938431633811506563097922337912791243
KT07-14_MC03 32.1100134.0000-28002007-06-20SFA13KT07-14MC03no informationno information1912851459268107044527004136363053362048127
KT07-14_MC04 31.3000134.0750-46512007-06-21SFA14KT07-14MC04no informationno information24265098364031552782719963233108826931010239107
KT07-14_MC07 33.3148136.3100-20912007-06-23SFA15KT07-14MC07no informationno information2694673136209120597135031288181246996021243554631711
KT07-14_MC0733.3148136.3100-20912007-06-23SFA28KT07-14MC07no informationno information217907710167081550910082057006691693776908834196
KT07-14_MC0733.3148136.3100-20912007-06-23SFA29KT07-14MC07no informationno information2763535133369620844132177789259914158498757438108
KT07-14_MC0733.3148136.3100-20912007-06-23SFA30KT07-14MC07no informationno information25527851091190182321080604764610270454310240842685
MSM09/2_432-5 54.2857-48.0008-38452008-08-25SFA10MERIAN 09/02MUC 685Light brown sandy to silty clayKucera et al. (2015)23056301054916175891044699737270157368633085
MSM09/2_453-7 62.5432-52.6322-26342008-09-03SFA11MERIAN 09/02MUC 687Light brown homogeneous clayKucera et al. (2015)22286061122605167441112720685913971713901442
MSM09/2_472-2 62.5528-56.4680-23302008-09-11SFA12MERIAN 09/02MUC 697Coarse sand with dropstonesKucera et al. (2015)22917901289968140511281642572510501810401354
MSM09/2_453-762.5432-52.6322-26342008-09-03SFA25MERIAN 09/02MUC 687Light brown homogeneous clayKucera et al. (2015)1787177108750510614108114042491382138211
MSM09/2_453-762.5432-52.6322-26342008-09-03SFA26MERIAN 09/02MUC 687Light brown homogeneous clayKucera et al. (2015)21994601182483118811175452485011661411601122
MSM09/2_453-762.5432-52.6322-26342008-09-03SFA27MERIAN 09/02MUC 687Light brown homogeneous clayKucera et al. (2015)2186467140185912242139457549581582158211