10.5061/DRYAD.6TN7C
Ray, Jessica L.
University of Glasgow
Althammer, Julia
Friedrich Schiller University Jena
Skaar, Katrine S.
Friedrich Schiller University Jena
Simonelli, Paolo
University of Bergen
Larsen, Aud
Uni Research (Norway)
Stoecker, Diane
University of Maryland, College Park
Sazhin, Andrey
Institute of Oceanology
Ijaz, Umer Z.
University of Glasgow
Quince, Christopher
University of Warwick
Nejstgaard, Jens C.
Leibniz Institute of Freshwater Ecology and Inland Fisheries
Frischer, Marc
Skidaway Institute of Oceanography
Pohnert, Georg
Friedrich Schiller University Jena
Troedsson, Christofer
Uni Research (Norway)
Data from: Metabarcoding and metabolome analyses of copepod grazing reveal
feeding preference and linkage to metabolite classes in dynamic microbial
plankton communities
Dryad
dataset
2016
Protists
Predator Prey Interactions
Foodwebs
Diet Analysis
2016-09-20T13:33:43Z
2016-09-20T13:33:43Z
en
https://doi.org/10.1111/mec.13844
https://www.ncbi.nlm.nih.gov/nuccore/..%2Fsra%2F%3Fterm%3DSRP076974
4980064 bytes
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CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
In order to characterize copepod feeding in relation to microbial plankton
community dynamics, we combined metabarcoding and metabolome analyses
during a 22-day seawater mesocosm experiment. Nutrient amendment of
mesocosms promoted the development of haptophyte (Phaeocystis pouchetii)-
and diatom (Skeletonema marinoi)-dominated plankton communities in
mesocosms, in which Calanus sp. copepods were incubated for 24 h in
flow-through chambers to allow access to prey particles (<500 μm).
Copepods and mesocosm water sampled six times spanning the experiment were
analysed using metabarcoding, while intracellular metabolite profiles of
mesocosm plankton communities were generated for all experimental days.
Taxon-specific metabarcoding ratios (ratio of consumed prey to available
prey in the surrounding seawater) revealed diverse and dynamic copepod
feeding selection, with positive selection on large diatoms, heterotrophic
nanoflagellates and fungi, while smaller phytoplankton, including P.
pouchetii, were passively consumed or even negatively selected according
to our indicator. Our analysis of the relationship between Calanus grazing
ratios and intracellular metabolite profiles indicates the importance of
carbohydrates and lipids in plankton succession and copepod–prey
interactions. This molecular characterization of Calanus sp. grazing
therefore provides new evidence for selective feeding in mixed plankton
assemblages and corroborates previous findings that copepod grazing may be
coupled to the developmental and metabolic stage of the entire prey
community rather than to individual prey abundances.
SRP076974Sequence Read Archive containing sequence flowgram files for
copepod gut content ("COP") and filterable plankton biomass from
mesocosm seawater ("FIL") eukaryotic microbial communities.
Sequences were generated from amplicon libraries generated using PCR
primers targeting the V7 region of the eukaryote small subunit rRNA gene
(SSU rRNA). Each flowgram file contains sequence information for 24
biological samples which were pooled and indexed prior to
sequencing.Sequence read identifiers and CREST taxonomic assignmentsThis
zipped archive contains 48 taxonomic assigment text files: one taxonomic
assignment file (sequence identification number and taxonomy with tab
separation) for each sample used in this study (24 copepod gut content
samples and 24 filterable seawater plankton biomass samples). Taxonomic
assignment of quality-trimmed sequences was performed using the CREST
classifier with Silvamod reference
database.Taxonomic_assignments.zipAmpliconNoise OTU tableThis table
summarizes OTU (98% cut-off) abundance in all sequence samples used for
this study. Rows of the table are OTUs and columns of the table are
samples. Column names consist of "TYPE_TreatmentDate". TYPE
indicates sample type ("COP" - copepod gut content or
"FIL" - filterable seawater plankton biomass). Treatment
designations indicate mineral nutrient additions for each treatment:
"blank" - Control mesocosms that received no mineral nutrients,
"NP" - mesocosms that received N + P addition, "NPSi"
- mesocosms that received N + P + Si addition, "fjord" - samples
taken from the adjacent Raunefjorden. Dates indicate sampling date in
March 2012.Ray_et_al-AmpliconNoise_OTUs_cutoff98.csvTaxonomic assignments
for AmpliconNoise OTUsThis file contains taxonomic assignments for
AmpliconNoise-identified OTUs (98% cut-off). Taxonomic assignment of OTUs
was performed using the CREST classifier with Silvamod reference
database.Ray_et_al-AmpliconNoise_OTUs_taxonomic_assignments.txtCREST
taxonomic assignments tableThis table shows the abundance of highest-rank
CREST taxonomic assignments of sequence reads for all
samples.CREST_taxonomy_table.csv