Gene expression profiles for Neocalanus flemingeri pre adults (CV) exposed to four different experimental food conditions collected from the M/V Dora in the Gulf of Alaska at station GAK1 from April 2019
Gene expression profiles for Neocalanus flemingeri pre adults (CV) exposed to four different experimental food conditions collected from the M/V Dora in the Gulf of Alaska at station GAK1 from April 2019
Date
2024-07-16
Authors
Lenz, Petra H.
Hartline, Daniel K.
Roncalli, Vittoria
Block, Lauren N
Niestroy, Jeanette L.
Cieslak, Matthew C.
Hartline, Daniel K.
Roncalli, Vittoria
Block, Lauren N
Niestroy, Jeanette L.
Cieslak, Matthew C.
Linked Authors
Alternative Title
Citable URI
Date Created
2024-05-30
Location
Northern Gulf of Alaska LTER
westlimit: -149.4838; southlimit: 59.8443; eastlimit: -149.4838; northlimit: 59.8443
westlimit: -149.4838; southlimit: 59.8443; eastlimit: -149.4838; northlimit: 59.8443
DOI
10.26008/1912/bco-dmo.914459.1
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Keywords
Gulf of Alaska
Neocalanus flemingeri
incubation experiment
lipid accumulation
gene expression
Neocalanus flemingeri
incubation experiment
lipid accumulation
gene expression
Abstract
This experimental dataset includes relative expression of individual Neocalanus flemingeri stage CV individuals incubated for different lengths of time and four different food treatments. The experimental protocol and results are described in detail in Roncalli et al., 2023. Briefly, field-collected N. flemingeri were allowed to molt into stage CV and then sorted into four different treatments: no food, low carbon, high carbon and high carbon with diatoms. After a one-week incubation, individuals from all four treatments were processed individually for RNA-Seq. In addition, following two and three-week incubations, copepods from the three fed treatments were processed individually for RNA-Seq. Short-sequence reads were mapped against a reference transcriptome and normalized gene expression was computed for each transcript. The dataset includes log-transformed relative gene expression in reads per kilobase per million reads (RPKM) (log2[RPKM+1]). The dataset also includes a list of differentially expressed genes and a look-up table that cross-references the hierarchical identifications of transcripts generated by the Trinity assembly software and the corresponding National Center for Biotechnology Information (NCBI) accession number.
These data are further described in the following publications: Roncalli, et al. (2023) (DOI: 10.1093/plankt/fbad045) and Roncalli, et al. (2019) (DOI: 10.1038/s42003-019-0565-5)
For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/914459
Description
Dataset: Neocalanus flemingeri incubation experiment: gene expression
Embargo Date
Citation
Lenz, P. H., Hartline, D. K., Roncalli, V., Block, L. N., Niestroy, J. L., & Cieslak, M. C. (2024). Gene expression profiles for Neocalanus flemingeri pre adults (CV) exposed to four different experimental food conditions collected from the M/V Dora in the Gulf of Alaska at station GAK1 from April 2019 (Version 1) [Data set]. Biological and Chemical Oceanography Data Management Office (BCO-DMO). https://doi.org/10.26008/1912/BCO-DMO.914459.1